-- dump date 20120504_161514 -- class Genbank::misc_feature -- table misc_feature_note -- id note 318167000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 318167000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 318167000003 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 318167000004 Walker A motif; other site 318167000005 ATP binding site [chemical binding]; other site 318167000006 Walker B motif; other site 318167000007 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167000008 arginine finger; other site 318167000009 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 318167000010 DnaA box-binding interface [nucleotide binding]; other site 318167000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 318167000012 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 318167000013 putative DNA binding surface [nucleotide binding]; other site 318167000014 dimer interface [polypeptide binding]; other site 318167000015 beta-clamp/clamp loader binding surface; other site 318167000016 beta-clamp/translesion DNA polymerase binding surface; other site 318167000017 recombination protein F; Reviewed; Region: recF; PRK00064 318167000018 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167000019 Walker A/P-loop; other site 318167000020 ATP binding site [chemical binding]; other site 318167000021 Q-loop/lid; other site 318167000022 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167000023 ABC transporter signature motif; other site 318167000024 Walker B; other site 318167000025 D-loop; other site 318167000026 H-loop/switch region; other site 318167000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 318167000028 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 318167000029 Mg2+ binding site [ion binding]; other site 318167000030 G-X-G motif; other site 318167000031 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 318167000032 anchoring element; other site 318167000033 dimer interface [polypeptide binding]; other site 318167000034 ATP binding site [chemical binding]; other site 318167000035 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 318167000036 active site 318167000037 putative metal-binding site [ion binding]; other site 318167000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 318167000039 HDOD domain; Region: HDOD; pfam08668 318167000040 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 318167000041 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 318167000042 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 318167000043 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 318167000044 dimer interface [polypeptide binding]; other site 318167000045 motif 1; other site 318167000046 active site 318167000047 motif 2; other site 318167000048 motif 3; other site 318167000049 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 318167000050 translocation protein TolB; Provisional; Region: tolB; PRK01742 318167000051 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318167000052 translocation protein TolB; Provisional; Region: tolB; PRK02889 318167000053 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 318167000054 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318167000055 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 318167000056 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 318167000057 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 318167000058 active site 318167000059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 318167000060 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 318167000061 CPxP motif; other site 318167000062 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 318167000063 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 318167000064 dimer interface [polypeptide binding]; other site 318167000065 active site 318167000066 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 318167000067 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 318167000068 substrate binding site [chemical binding]; other site 318167000069 oxyanion hole (OAH) forming residues; other site 318167000070 trimer interface [polypeptide binding]; other site 318167000071 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167000072 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318167000073 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318167000074 proline dipeptidase; Provisional; Region: PRK13607 318167000075 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 318167000076 active site 318167000077 Uncharacterized conserved protein [Function unknown]; Region: COG1739 318167000078 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 318167000079 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 318167000080 Cation transport protein; Region: TrkH; cl10514 318167000081 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 318167000082 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 318167000083 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 318167000084 dimerization interface [polypeptide binding]; other site 318167000085 putative DNA binding site [nucleotide binding]; other site 318167000086 putative Zn2+ binding site [ion binding]; other site 318167000087 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 318167000088 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 318167000089 Cation transport protein; Region: TrkH; cl10514 318167000090 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 318167000091 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167000092 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 318167000093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167000094 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 318167000095 16S rRNA methyltransferase B; Provisional; Region: PRK10901 318167000096 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 318167000097 putative RNA binding site [nucleotide binding]; other site 318167000098 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 318167000099 S-adenosylmethionine binding site [chemical binding]; other site 318167000100 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 318167000101 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 318167000102 putative active site [active] 318167000103 substrate binding site [chemical binding]; other site 318167000104 putative cosubstrate binding site; other site 318167000105 catalytic site [active] 318167000106 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 318167000107 substrate binding site [chemical binding]; other site 318167000108 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 318167000109 active site 318167000110 catalytic residues [active] 318167000111 metal binding site [ion binding]; metal-binding site 318167000112 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 318167000113 putative peptidoglycan binding site; other site 318167000114 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 318167000115 Protein of unknown function (DUF494); Region: DUF494; cl01103 318167000116 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 318167000117 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 318167000118 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 318167000119 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 318167000120 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 318167000121 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 318167000122 apolar tunnel; other site 318167000123 heme binding site [chemical binding]; other site 318167000124 dimerization interface [polypeptide binding]; other site 318167000125 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 318167000126 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 318167000127 active site 318167000128 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 318167000129 active site 318167000130 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 318167000131 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 318167000132 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 318167000133 shikimate binding site; other site 318167000134 NAD(P) binding site [chemical binding]; other site 318167000135 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 318167000136 GAF domain; Region: GAF_2; pfam13185 318167000137 GAF domain; Region: GAF; cl15785 318167000138 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167000139 metal binding site [ion binding]; metal-binding site 318167000140 active site 318167000141 I-site; other site 318167000142 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 318167000143 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 318167000144 trimer interface [polypeptide binding]; other site 318167000145 putative metal binding site [ion binding]; other site 318167000146 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 318167000147 PAS fold; Region: PAS_3; pfam08447 318167000148 putative active site [active] 318167000149 heme pocket [chemical binding]; other site 318167000150 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167000151 metal binding site [ion binding]; metal-binding site 318167000152 active site 318167000153 I-site; other site 318167000154 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 318167000155 lysophospholipase L2; Provisional; Region: PRK10749 318167000156 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 318167000157 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 318167000158 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 318167000159 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 318167000160 active site 318167000161 purine riboside binding site [chemical binding]; other site 318167000162 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 318167000163 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 318167000164 FeS/SAM binding site; other site 318167000165 HemN C-terminal domain; Region: HemN_C; pfam06969 318167000166 NRDE protein; Region: NRDE; cl01315 318167000167 MarC family integral membrane protein; Region: MarC; cl00919 318167000168 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 318167000169 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 318167000170 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 318167000171 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 318167000172 UTRA domain; Region: UTRA; cl01230 318167000173 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 318167000174 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 318167000175 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 318167000176 S-adenosylmethionine binding site [chemical binding]; other site 318167000177 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 318167000178 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 318167000179 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 318167000180 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 318167000181 4Fe-4S binding domain; Region: Fer4; cl02805 318167000182 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 318167000183 4Fe-4S binding domain; Region: Fer4; cl02805 318167000184 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 318167000185 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 318167000186 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 318167000187 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 318167000188 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 318167000189 [4Fe-4S] binding site [ion binding]; other site 318167000190 molybdopterin cofactor binding site; other site 318167000191 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 318167000192 molybdopterin cofactor binding site; other site 318167000193 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 318167000194 4Fe-4S binding domain; Region: Fer4; cl02805 318167000195 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 318167000196 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 318167000197 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 318167000198 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 318167000199 thioester formation/cholesterol transfer; other site 318167000200 EcsC protein family; Region: EcsC; pfam12787 318167000201 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 318167000202 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 318167000203 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167000204 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 318167000205 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 318167000206 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318167000207 threonine and homoserine efflux system; Provisional; Region: PRK10532 318167000208 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 318167000209 binding surface 318167000210 TPR motif; other site 318167000211 Tetratricopeptide repeat; Region: TPR_12; pfam13424 318167000212 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 318167000213 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 318167000214 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 318167000215 dimer interface [polypeptide binding]; other site 318167000216 active site 318167000217 metal binding site [ion binding]; metal-binding site 318167000218 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 318167000219 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 318167000220 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318167000221 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318167000222 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 318167000223 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 318167000224 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 318167000225 FeS/SAM binding site; other site 318167000226 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 318167000227 substrate binding site [chemical binding]; other site 318167000228 ATP binding site [chemical binding]; other site 318167000229 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 318167000230 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296; cl15800 318167000231 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 318167000232 dimerization interface [polypeptide binding]; other site 318167000233 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167000234 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167000235 dimer interface [polypeptide binding]; other site 318167000236 putative CheW interface [polypeptide binding]; other site 318167000237 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167000238 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 318167000239 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 318167000240 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 318167000241 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 318167000242 FeS/SAM binding site; other site 318167000243 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 318167000244 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 318167000245 trimer interface [polypeptide binding]; other site 318167000246 dimer interface [polypeptide binding]; other site 318167000247 putative active site [active] 318167000248 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 318167000249 MoaE interaction surface [polypeptide binding]; other site 318167000250 MoeB interaction surface [polypeptide binding]; other site 318167000251 thiocarboxylated glycine; other site 318167000252 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 318167000253 MoaE homodimer interface [polypeptide binding]; other site 318167000254 MoaD interaction [polypeptide binding]; other site 318167000255 active site residues [active] 318167000256 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 318167000257 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 318167000258 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 318167000259 dimer interface [polypeptide binding]; other site 318167000260 conserved gate region; other site 318167000261 putative PBP binding loops; other site 318167000262 ABC-ATPase subunit interface; other site 318167000263 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167000264 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 318167000265 Walker A/P-loop; other site 318167000266 ATP binding site [chemical binding]; other site 318167000267 Q-loop/lid; other site 318167000268 ABC transporter signature motif; other site 318167000269 Walker B; other site 318167000270 D-loop; other site 318167000271 H-loop/switch region; other site 318167000272 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318167000273 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167000274 active site 318167000275 phosphorylation site [posttranslational modification] 318167000276 intermolecular recognition site; other site 318167000277 dimerization interface [polypeptide binding]; other site 318167000278 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 318167000279 DNA binding site [nucleotide binding] 318167000280 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318167000281 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 318167000282 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 318167000283 ATP binding site [chemical binding]; other site 318167000284 Mg2+ binding site [ion binding]; other site 318167000285 G-X-G motif; other site 318167000286 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 318167000287 active site 318167000288 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167000289 metal binding site [ion binding]; metal-binding site 318167000290 active site 318167000291 I-site; other site 318167000292 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 318167000293 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 318167000294 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 318167000295 ATP binding site [chemical binding]; other site 318167000296 substrate interface [chemical binding]; other site 318167000297 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 318167000298 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 318167000299 dimer interface [polypeptide binding]; other site 318167000300 putative functional site; other site 318167000301 putative MPT binding site; other site 318167000302 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 318167000303 GIY-YIG motif/motif A; other site 318167000304 putative active site [active] 318167000305 putative metal binding site [ion binding]; other site 318167000306 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 318167000307 substrate binding pocket [chemical binding]; other site 318167000308 membrane-bound complex binding site; other site 318167000309 hinge residues; other site 318167000310 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 318167000311 putative active site [active] 318167000312 Zn binding site [ion binding]; other site 318167000313 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 318167000314 active site 318167000315 substrate-binding site [chemical binding]; other site 318167000316 metal-binding site [ion binding] 318167000317 ATP binding site [chemical binding]; other site 318167000318 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 318167000319 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 318167000320 dimerization interface [polypeptide binding]; other site 318167000321 domain crossover interface; other site 318167000322 redox-dependent activation switch; other site 318167000323 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 318167000324 RNA binding surface [nucleotide binding]; other site 318167000325 general secretion pathway protein C; Region: typeII_sec_gspC; TIGR01713 318167000326 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 318167000327 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 318167000328 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 318167000329 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 318167000330 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 318167000331 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 318167000332 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 318167000333 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 318167000334 Walker A motif; other site 318167000335 ATP binding site [chemical binding]; other site 318167000336 Walker B motif; other site 318167000337 general secretion pathway protein F; Region: GspF; TIGR02120 318167000338 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 318167000339 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 318167000340 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 318167000341 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 318167000342 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 318167000343 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 318167000344 general secretion pathway protein H; Region: typeII_sec_gspH; TIGR01708 318167000345 Type II transport protein GspH; Region: GspH; pfam12019 318167000346 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 318167000347 general secretion pathway protein I; Region: gspI; TIGR01707 318167000348 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 318167000349 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 318167000350 general secretion pathway protein J; Region: gspJ; TIGR01711 318167000351 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 318167000352 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 318167000353 general secretion pathway protein L; Region: typeII_sec_gspL; TIGR01709 318167000354 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 318167000355 GspL periplasmic domain; Region: GspL_C; cl14909 318167000356 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 318167000357 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 318167000358 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318167000359 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 318167000360 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 318167000361 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 318167000362 dimer interface [polypeptide binding]; other site 318167000363 ADP-ribose binding site [chemical binding]; other site 318167000364 active site 318167000365 nudix motif; other site 318167000366 metal binding site [ion binding]; metal-binding site 318167000367 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 318167000368 active site 318167000369 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 318167000370 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 318167000371 active site residue [active] 318167000372 selenophosphate synthetase; Provisional; Region: PRK00943 318167000373 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 318167000374 dimerization interface [polypeptide binding]; other site 318167000375 putative ATP binding site [chemical binding]; other site 318167000376 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167000377 WHG domain; Region: WHG; pfam13305 318167000378 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 318167000379 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 318167000380 putative acyl-acceptor binding pocket; other site 318167000381 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 318167000382 Di-iron ligands [ion binding]; other site 318167000383 Growth-arrest specific micro-tubule binding; Region: GAS; pfam13851 318167000384 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 318167000385 Helix-turn-helix domains; Region: HTH; cl00088 318167000386 tRNA (Uracil-5-)-methyltransferase; Region: tRNA_U5-meth_tr; pfam05958 318167000387 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 318167000388 S-adenosylmethionine binding site [chemical binding]; other site 318167000389 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 318167000390 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 318167000391 RNA/DNA binding site [nucleotide binding]; other site 318167000392 RRM dimerization site [polypeptide binding]; other site 318167000393 Integrase core domain; Region: rve; cl01316 318167000394 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 318167000395 Helix-turn-helix domains; Region: HTH; cl00088 318167000396 Winged helix-turn helix; Region: HTH_33; pfam13592 318167000397 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 318167000398 FAD binding domain; Region: FAD_binding_4; pfam01565 318167000399 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 318167000400 Helix-turn-helix domains; Region: HTH; cl00088 318167000401 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 318167000402 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 318167000403 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 318167000404 pantothenate kinase; Provisional; Region: PRK05439 318167000405 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 318167000406 ATP-binding site [chemical binding]; other site 318167000407 CoA-binding site [chemical binding]; other site 318167000408 Mg2+-binding site [ion binding]; other site 318167000409 elongation factor Tu; Reviewed; Region: PRK00049 318167000410 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 318167000411 G1 box; other site 318167000412 GEF interaction site [polypeptide binding]; other site 318167000413 GTP/Mg2+ binding site [chemical binding]; other site 318167000414 Switch I region; other site 318167000415 G2 box; other site 318167000416 G3 box; other site 318167000417 Switch II region; other site 318167000418 G4 box; other site 318167000419 G5 box; other site 318167000420 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 318167000421 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 318167000422 Antibiotic Binding Site [chemical binding]; other site 318167000423 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 318167000424 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 318167000425 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 318167000426 putative homodimer interface [polypeptide binding]; other site 318167000427 KOW motif; Region: KOW; cl00354 318167000428 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 318167000429 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 318167000430 23S rRNA interface [nucleotide binding]; other site 318167000431 L7/L12 interface [polypeptide binding]; other site 318167000432 putative thiostrepton binding site; other site 318167000433 L25 interface [polypeptide binding]; other site 318167000434 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 318167000435 mRNA/rRNA interface [nucleotide binding]; other site 318167000436 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 318167000437 23S rRNA interface [nucleotide binding]; other site 318167000438 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 318167000439 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 318167000440 core dimer interface [polypeptide binding]; other site 318167000441 peripheral dimer interface [polypeptide binding]; other site 318167000442 L10 interface [polypeptide binding]; other site 318167000443 L11 interface [polypeptide binding]; other site 318167000444 putative EF-Tu interaction site [polypeptide binding]; other site 318167000445 putative EF-G interaction site [polypeptide binding]; other site 318167000446 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 318167000447 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 318167000448 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 318167000449 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 318167000450 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 318167000451 RPB11 interaction site [polypeptide binding]; other site 318167000452 RPB12 interaction site [polypeptide binding]; other site 318167000453 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 318167000454 RPB3 interaction site [polypeptide binding]; other site 318167000455 RPB1 interaction site [polypeptide binding]; other site 318167000456 RPB11 interaction site [polypeptide binding]; other site 318167000457 RPB10 interaction site [polypeptide binding]; other site 318167000458 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 318167000459 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 318167000460 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 318167000461 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 318167000462 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 318167000463 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 318167000464 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 318167000465 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 318167000466 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 318167000467 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 318167000468 DNA binding site [nucleotide binding] 318167000469 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 318167000470 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 318167000471 S17 interaction site [polypeptide binding]; other site 318167000472 S8 interaction site; other site 318167000473 16S rRNA interaction site [nucleotide binding]; other site 318167000474 streptomycin interaction site [chemical binding]; other site 318167000475 23S rRNA interaction site [nucleotide binding]; other site 318167000476 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 318167000477 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 318167000478 elongation factor G; Reviewed; Region: PRK00007 318167000479 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 318167000480 G1 box; other site 318167000481 putative GEF interaction site [polypeptide binding]; other site 318167000482 GTP/Mg2+ binding site [chemical binding]; other site 318167000483 Switch I region; other site 318167000484 G2 box; other site 318167000485 G3 box; other site 318167000486 Switch II region; other site 318167000487 G4 box; other site 318167000488 G5 box; other site 318167000489 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 318167000490 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 318167000491 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 318167000492 elongation factor Tu; Reviewed; Region: PRK00049 318167000493 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 318167000494 G1 box; other site 318167000495 GEF interaction site [polypeptide binding]; other site 318167000496 GTP/Mg2+ binding site [chemical binding]; other site 318167000497 Switch I region; other site 318167000498 G2 box; other site 318167000499 G3 box; other site 318167000500 Switch II region; other site 318167000501 G4 box; other site 318167000502 G5 box; other site 318167000503 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 318167000504 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 318167000505 Antibiotic Binding Site [chemical binding]; other site 318167000506 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 318167000507 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 318167000508 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 318167000509 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 318167000510 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 318167000511 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 318167000512 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 318167000513 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 318167000514 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 318167000515 putative translocon binding site; other site 318167000516 protein-rRNA interface [nucleotide binding]; other site 318167000517 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 318167000518 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 318167000519 G-X-X-G motif; other site 318167000520 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 318167000521 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 318167000522 23S rRNA interface [nucleotide binding]; other site 318167000523 5S rRNA interface [nucleotide binding]; other site 318167000524 putative antibiotic binding site [chemical binding]; other site 318167000525 L25 interface [polypeptide binding]; other site 318167000526 L27 interface [polypeptide binding]; other site 318167000527 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 318167000528 23S rRNA interface [nucleotide binding]; other site 318167000529 putative translocon interaction site; other site 318167000530 signal recognition particle (SRP54) interaction site; other site 318167000531 L23 interface [polypeptide binding]; other site 318167000532 trigger factor interaction site; other site 318167000533 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 318167000534 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 318167000535 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 318167000536 KOW motif; Region: KOW; cl00354 318167000537 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 318167000538 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 318167000539 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 318167000540 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 318167000541 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 318167000542 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 318167000543 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 318167000544 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 318167000545 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 318167000546 5S rRNA interface [nucleotide binding]; other site 318167000547 L5 interface [polypeptide binding]; other site 318167000548 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 318167000549 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 318167000550 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 318167000551 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 318167000552 23S rRNA binding site [nucleotide binding]; other site 318167000553 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 318167000554 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 318167000555 SecY translocase; Region: SecY; pfam00344 318167000556 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 318167000557 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 318167000558 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 318167000559 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 318167000560 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 318167000561 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 318167000562 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 318167000563 RNA binding surface [nucleotide binding]; other site 318167000564 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 318167000565 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 318167000566 alphaNTD homodimer interface [polypeptide binding]; other site 318167000567 alphaNTD - beta interaction site [polypeptide binding]; other site 318167000568 alphaNTD - beta' interaction site [polypeptide binding]; other site 318167000569 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 318167000570 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 318167000571 CcmE; Region: CcmE; cl00994 318167000572 Heme exporter protein D (CcmD); Region: CcmD; cl11475 318167000573 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 318167000574 CcmB protein; Region: CcmB; cl01016 318167000575 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 318167000576 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 318167000577 Walker A/P-loop; other site 318167000578 ATP binding site [chemical binding]; other site 318167000579 Q-loop/lid; other site 318167000580 ABC transporter signature motif; other site 318167000581 Walker B; other site 318167000582 D-loop; other site 318167000583 H-loop/switch region; other site 318167000584 Cytochrome c; Region: Cytochrom_C; cl11414 318167000585 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 318167000586 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 318167000587 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 318167000588 binding surface 318167000589 TPR motif; other site 318167000590 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 318167000591 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 318167000592 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 318167000593 catalytic residues [active] 318167000594 central insert; other site 318167000595 Cytochrome C biogenesis protein; Region: CcmH; cl01179 318167000596 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 318167000597 catalytic residues [active] 318167000598 competence damage-inducible protein A; Provisional; Region: PRK00549 318167000599 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 318167000600 putative MPT binding site; other site 318167000601 Competence-damaged protein; Region: CinA; cl00666 318167000602 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 318167000603 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 318167000604 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 318167000605 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 318167000606 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 318167000607 acetylornithine deacetylase; Provisional; Region: PRK05111 318167000608 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 318167000609 metal binding site [ion binding]; metal-binding site 318167000610 putative dimer interface [polypeptide binding]; other site 318167000611 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 318167000612 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167000613 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 318167000614 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 318167000615 nucleotide binding site [chemical binding]; other site 318167000616 substrate binding site [chemical binding]; other site 318167000617 ornithine carbamoyltransferase; Provisional; Region: PRK14805 318167000618 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 318167000619 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167000620 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 318167000621 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 318167000622 ANP binding site [chemical binding]; other site 318167000623 Substrate Binding Site II [chemical binding]; other site 318167000624 Substrate Binding Site I [chemical binding]; other site 318167000625 argininosuccinate lyase; Provisional; Region: PRK04833 318167000626 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 318167000627 active sites [active] 318167000628 tetramer interface [polypeptide binding]; other site 318167000629 PAS domain; Region: PAS_9; pfam13426 318167000630 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 318167000631 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167000632 metal binding site [ion binding]; metal-binding site 318167000633 active site 318167000634 I-site; other site 318167000635 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318167000636 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 318167000637 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 318167000638 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318167000639 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318167000640 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 318167000641 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 318167000642 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 318167000643 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 318167000644 Cytochrome c; Region: Cytochrom_C; cl11414 318167000645 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 318167000646 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 318167000647 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 318167000648 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 318167000649 Cupin domain; Region: Cupin_2; cl09118 318167000650 DoxX; Region: DoxX; cl00976 318167000651 Helix-turn-helix domains; Region: HTH; cl00088 318167000652 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 318167000653 The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold; Region: PBP2_HupR; cd08431 318167000654 putative dimerization interface [polypeptide binding]; other site 318167000655 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 318167000656 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 318167000657 putative substrate translocation pore; other site 318167000658 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167000659 Helix-turn-helix domains; Region: HTH; cl00088 318167000660 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 318167000661 dimerization interface [polypeptide binding]; other site 318167000662 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 318167000663 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 318167000664 active site 318167000665 catalytic tetrad [active] 318167000666 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 318167000667 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 318167000668 DNA binding residues [nucleotide binding] 318167000669 dimer interface [polypeptide binding]; other site 318167000670 copper exporting ATPase; Provisional; Region: copA; PRK10671 318167000671 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 318167000672 metal-binding site [ion binding] 318167000673 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 318167000674 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 318167000675 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 318167000676 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 318167000677 catalytic triad [active] 318167000678 dimer interface [polypeptide binding]; other site 318167000679 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 318167000680 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167000681 dimer interface [polypeptide binding]; other site 318167000682 putative CheW interface [polypeptide binding]; other site 318167000683 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 318167000684 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 318167000685 dimerization interface [polypeptide binding]; other site 318167000686 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 318167000687 dimer interface [polypeptide binding]; other site 318167000688 phosphorylation site [posttranslational modification] 318167000689 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 318167000690 ATP binding site [chemical binding]; other site 318167000691 Mg2+ binding site [ion binding]; other site 318167000692 G-X-G motif; other site 318167000693 osmolarity response regulator; Provisional; Region: ompR; PRK09468 318167000694 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167000695 active site 318167000696 phosphorylation site [posttranslational modification] 318167000697 intermolecular recognition site; other site 318167000698 dimerization interface [polypeptide binding]; other site 318167000699 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 318167000700 DNA binding site [nucleotide binding] 318167000701 UbiA prenyltransferase family; Region: UbiA; cl00337 318167000702 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 318167000703 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 318167000704 Subunit I/III interface [polypeptide binding]; other site 318167000705 Subunit III/IV interface [polypeptide binding]; other site 318167000706 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 318167000707 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 318167000708 D-pathway; other site 318167000709 Putative ubiquinol binding site [chemical binding]; other site 318167000710 Low-spin heme (heme b) binding site [chemical binding]; other site 318167000711 Putative water exit pathway; other site 318167000712 Binuclear center (heme o3/CuB) [ion binding]; other site 318167000713 K-pathway; other site 318167000714 Putative proton exit pathway; other site 318167000715 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 318167000716 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 318167000717 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 318167000718 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167000719 Helix-turn-helix domains; Region: HTH; cl00088 318167000720 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 318167000721 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 318167000722 putative NAD(P) binding site [chemical binding]; other site 318167000723 RecX family; Region: RecX; cl00936 318167000724 RecX family; Region: RecX; cl00936 318167000725 fumarate hydratase; Reviewed; Region: fumC; PRK00485 318167000726 Class II fumarases; Region: Fumarase_classII; cd01362 318167000727 active site 318167000728 tetramer interface [polypeptide binding]; other site 318167000729 aconitate hydratase; Validated; Region: PRK09277 318167000730 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 318167000731 substrate binding site [chemical binding]; other site 318167000732 ligand binding site [chemical binding]; other site 318167000733 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 318167000734 substrate binding site [chemical binding]; other site 318167000735 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 318167000736 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 318167000737 acetoin reductases; Region: 23BDH; TIGR02415 318167000738 NAD binding site [chemical binding]; other site 318167000739 homotetramer interface [polypeptide binding]; other site 318167000740 homodimer interface [polypeptide binding]; other site 318167000741 active site 318167000742 substrate binding site [chemical binding]; other site 318167000743 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 318167000744 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 318167000745 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 318167000746 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 318167000747 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 318167000748 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 318167000749 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 318167000750 RNA binding site [nucleotide binding]; other site 318167000751 putative metal dependent hydrolase; Provisional; Region: PRK11598 318167000752 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 318167000753 Sulfatase; Region: Sulfatase; cl10460 318167000754 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 318167000755 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318167000756 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167000757 active site 318167000758 phosphorylation site [posttranslational modification] 318167000759 intermolecular recognition site; other site 318167000760 dimerization interface [polypeptide binding]; other site 318167000761 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 318167000762 DNA binding site [nucleotide binding] 318167000763 adaptive-response sensory kinase; Validated; Region: PRK09303 318167000764 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 318167000765 dimer interface [polypeptide binding]; other site 318167000766 phosphorylation site [posttranslational modification] 318167000767 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 318167000768 ATP binding site [chemical binding]; other site 318167000769 Mg2+ binding site [ion binding]; other site 318167000770 G-X-G motif; other site 318167000771 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 318167000772 Sulfatase; Region: Sulfatase; cl10460 318167000773 carboxylesterase BioH; Provisional; Region: PRK10349 318167000774 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 318167000775 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 318167000776 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 318167000777 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 318167000778 NifU-like domain; Region: NifU; cl00484 318167000779 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 318167000780 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 318167000781 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 318167000782 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 318167000783 MatE; Region: MatE; cl10513 318167000784 MatE; Region: MatE; cl10513 318167000785 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 318167000786 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 318167000787 Cu(I) binding site [ion binding]; other site 318167000788 UbiA prenyltransferase family; Region: UbiA; cl00337 318167000789 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 318167000790 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 318167000791 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 318167000792 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 318167000793 Subunit III/VIIa interface [polypeptide binding]; other site 318167000794 Phospholipid binding site [chemical binding]; other site 318167000795 Subunit I/III interface [polypeptide binding]; other site 318167000796 Subunit III/VIb interface [polypeptide binding]; other site 318167000797 Subunit III/VIa interface; other site 318167000798 Subunit III/Vb interface [polypeptide binding]; other site 318167000799 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 318167000800 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 318167000801 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 318167000802 Subunit I/III interface [polypeptide binding]; other site 318167000803 D-pathway; other site 318167000804 Subunit I/VIIc interface [polypeptide binding]; other site 318167000805 Subunit I/IV interface [polypeptide binding]; other site 318167000806 Subunit I/II interface [polypeptide binding]; other site 318167000807 Low-spin heme (heme a) binding site [chemical binding]; other site 318167000808 Subunit I/VIIa interface [polypeptide binding]; other site 318167000809 Subunit I/VIa interface [polypeptide binding]; other site 318167000810 Dimer interface; other site 318167000811 Putative water exit pathway; other site 318167000812 Binuclear center (heme a3/CuB) [ion binding]; other site 318167000813 K-pathway; other site 318167000814 Subunit I/Vb interface [polypeptide binding]; other site 318167000815 Putative proton exit pathway; other site 318167000816 Subunit I/VIb interface; other site 318167000817 Subunit I/VIc interface [polypeptide binding]; other site 318167000818 Electron transfer pathway; other site 318167000819 Subunit I/VIIIb interface [polypeptide binding]; other site 318167000820 Subunit I/VIIb interface [polypeptide binding]; other site 318167000821 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 318167000822 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 318167000823 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 318167000824 Cytochrome c; Region: Cytochrom_C; cl11414 318167000825 Cytochrome c; Region: Cytochrom_C; cl11414 318167000826 Cell division inhibitor SulA; Region: SulA; cl01880 318167000827 LexA repressor; Validated; Region: PRK00215 318167000828 Helix-turn-helix domains; Region: HTH; cl00088 318167000829 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 318167000830 Catalytic site [active] 318167000831 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 318167000832 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 318167000833 putative acyl-acceptor binding pocket; other site 318167000834 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 318167000835 aromatic amino acid transport protein; Region: araaP; TIGR00837 318167000836 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 318167000837 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167000838 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 318167000839 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167000840 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 318167000841 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 318167000842 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 318167000843 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 318167000844 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 318167000845 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 318167000846 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 318167000847 S-adenosylmethionine binding site [chemical binding]; other site 318167000848 synthase/transferase; Region: PLN02316 318167000849 NIMA-related protein kinase; Provisional; Region: PTZ00266 318167000850 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 318167000851 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 318167000852 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 318167000853 P loop; other site 318167000854 GTP binding site [chemical binding]; other site 318167000855 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 318167000856 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167000857 Walker A/P-loop; other site 318167000858 ATP binding site [chemical binding]; other site 318167000859 Q-loop/lid; other site 318167000860 ABC transporter signature motif; other site 318167000861 Walker B; other site 318167000862 D-loop; other site 318167000863 H-loop/switch region; other site 318167000864 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 318167000865 FtsX-like permease family; Region: FtsX; cl15850 318167000866 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 318167000867 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167000868 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 318167000869 DNA binding residues [nucleotide binding] 318167000870 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 318167000871 AMP-binding enzyme; Region: AMP-binding; cl15778 318167000872 O-succinylbenzoate synthase; Provisional; Region: PRK05105 318167000873 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 318167000874 active site 318167000875 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 318167000876 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 318167000877 nucleophilic elbow; other site 318167000878 catalytic triad; other site 318167000879 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 318167000880 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 318167000881 dimer interface [polypeptide binding]; other site 318167000882 tetramer interface [polypeptide binding]; other site 318167000883 PYR/PP interface [polypeptide binding]; other site 318167000884 TPP binding site [chemical binding]; other site 318167000885 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 318167000886 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 318167000887 TPP-binding site; other site 318167000888 HDOD domain; Region: HDOD; pfam08668 318167000889 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 318167000890 Helix-turn-helix domains; Region: HTH; cl00088 318167000891 putative transporter; Provisional; Region: PRK11021 318167000892 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 318167000893 putative metal binding site [ion binding]; other site 318167000894 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 318167000895 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 318167000896 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 318167000897 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 318167000898 Sel1 repeat; Region: Sel1; cl02723 318167000899 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 318167000900 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 318167000901 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 318167000902 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 318167000903 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 318167000904 NADH(P)-binding; Region: NAD_binding_10; pfam13460 318167000905 NAD(P) binding site [chemical binding]; other site 318167000906 putative active site [active] 318167000907 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 318167000908 Helix-turn-helix domains; Region: HTH; cl00088 318167000909 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 318167000910 substrate binding pocket [chemical binding]; other site 318167000911 dimerization interface [polypeptide binding]; other site 318167000912 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 318167000913 putative substrate translocation pore; other site 318167000914 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 318167000915 DTW domain; Region: DTW; cl01221 318167000916 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167000917 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 318167000918 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 318167000919 metal binding site [ion binding]; metal-binding site 318167000920 putative dimer interface [polypeptide binding]; other site 318167000921 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 318167000922 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 318167000923 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 318167000924 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 318167000925 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 318167000926 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 318167000927 Protein of unknown function (DUF2956); Region: DUF2956; pfam11169 318167000928 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 318167000929 BON domain; Region: BON; cl02771 318167000930 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318167000931 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 318167000932 two-component sensor protein; Provisional; Region: cpxA; PRK09470 318167000933 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 318167000934 dimerization interface [polypeptide binding]; other site 318167000935 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 318167000936 dimer interface [polypeptide binding]; other site 318167000937 phosphorylation site [posttranslational modification] 318167000938 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 318167000939 ATP binding site [chemical binding]; other site 318167000940 Mg2+ binding site [ion binding]; other site 318167000941 G-X-G motif; other site 318167000942 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167000943 active site 318167000944 phosphorylation site [posttranslational modification] 318167000945 intermolecular recognition site; other site 318167000946 dimerization interface [polypeptide binding]; other site 318167000947 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 318167000948 DNA binding site [nucleotide binding] 318167000949 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 318167000950 catalytic residues [active] 318167000951 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 318167000952 dimer interface [polypeptide binding]; other site 318167000953 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 318167000954 Cation efflux family; Region: Cation_efflux; cl00316 318167000955 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 318167000956 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 318167000957 E3 interaction surface; other site 318167000958 lipoyl attachment site [posttranslational modification]; other site 318167000959 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 318167000960 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 318167000961 alpha subunit interface [polypeptide binding]; other site 318167000962 TPP binding site [chemical binding]; other site 318167000963 heterodimer interface [polypeptide binding]; other site 318167000964 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 318167000965 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 318167000966 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 318167000967 tetramer interface [polypeptide binding]; other site 318167000968 TPP-binding site [chemical binding]; other site 318167000969 heterodimer interface [polypeptide binding]; other site 318167000970 phosphorylation loop region [posttranslational modification] 318167000971 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 318167000972 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167000973 active site 318167000974 phosphorylation site [posttranslational modification] 318167000975 intermolecular recognition site; other site 318167000976 dimerization interface [polypeptide binding]; other site 318167000977 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 318167000978 Walker A motif; other site 318167000979 ATP binding site [chemical binding]; other site 318167000980 Walker B motif; other site 318167000981 arginine finger; other site 318167000982 Helix-turn-helix domains; Region: HTH; cl00088 318167000983 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 318167000984 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 318167000985 dimer interface [polypeptide binding]; other site 318167000986 phosphorylation site [posttranslational modification] 318167000987 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 318167000988 ATP binding site [chemical binding]; other site 318167000989 Mg2+ binding site [ion binding]; other site 318167000990 G-X-G motif; other site 318167000991 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 318167000992 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 318167000993 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 318167000994 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 318167000995 G1 box; other site 318167000996 putative GEF interaction site [polypeptide binding]; other site 318167000997 GTP/Mg2+ binding site [chemical binding]; other site 318167000998 Switch I region; other site 318167000999 G2 box; other site 318167001000 G3 box; other site 318167001001 Switch II region; other site 318167001002 G4 box; other site 318167001003 G5 box; other site 318167001004 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 318167001005 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 318167001006 glutamine synthetase; Provisional; Region: glnA; PRK09469 318167001007 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 318167001008 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 318167001009 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167001010 I-site; other site 318167001011 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 318167001012 Helix-turn-helix domains; Region: HTH; cl00088 318167001013 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 318167001014 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 318167001015 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 318167001016 putative active site [active] 318167001017 dimerization interface [polypeptide binding]; other site 318167001018 putative tRNAtyr binding site [nucleotide binding]; other site 318167001019 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 318167001020 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 318167001021 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 318167001022 Cu(I) binding site [ion binding]; other site 318167001023 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167001024 dimer interface [polypeptide binding]; other site 318167001025 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 318167001026 putative CheW interface [polypeptide binding]; other site 318167001027 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 318167001028 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 318167001029 dimer interface [polypeptide binding]; other site 318167001030 active site 318167001031 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318167001032 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 318167001033 NAD(P) binding site [chemical binding]; other site 318167001034 homotetramer interface [polypeptide binding]; other site 318167001035 homodimer interface [polypeptide binding]; other site 318167001036 active site 318167001037 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 318167001038 putative active site 1 [active] 318167001039 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 318167001040 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 318167001041 dimer interface [polypeptide binding]; other site 318167001042 active site 318167001043 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 318167001044 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 318167001045 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167001046 Predicted exporter [General function prediction only]; Region: COG4258 318167001047 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 318167001048 active site 318167001049 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 318167001050 active sites [active] 318167001051 tetramer interface [polypeptide binding]; other site 318167001052 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 318167001053 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 318167001054 Ligand binding site; other site 318167001055 Putative Catalytic site; other site 318167001056 DXD motif; other site 318167001057 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 318167001058 putative acyl-acceptor binding pocket; other site 318167001059 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 318167001060 active site 2 [active] 318167001061 dimer interface [polypeptide binding]; other site 318167001062 active site 1 [active] 318167001063 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 318167001064 AMP-binding enzyme; Region: AMP-binding; cl15778 318167001065 Predicted membrane protein [Function unknown]; Region: COG4648 318167001066 Phosphopantetheine attachment site; Region: PP-binding; cl09936 318167001067 Phosphopantetheine attachment site; Region: PP-binding; cl09936 318167001068 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 318167001069 putative acyl-acceptor binding pocket; other site 318167001070 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 318167001071 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 318167001072 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 318167001073 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 318167001074 generic binding surface II; other site 318167001075 ssDNA binding site; other site 318167001076 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 318167001077 ATP binding site [chemical binding]; other site 318167001078 putative Mg++ binding site [ion binding]; other site 318167001079 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 318167001080 nucleotide binding region [chemical binding]; other site 318167001081 ATP-binding site [chemical binding]; other site 318167001082 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318167001083 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167001084 active site 318167001085 phosphorylation site [posttranslational modification] 318167001086 intermolecular recognition site; other site 318167001087 dimerization interface [polypeptide binding]; other site 318167001088 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 318167001089 DNA binding residues [nucleotide binding] 318167001090 dimerization interface [polypeptide binding]; other site 318167001091 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 318167001092 Histidine kinase; Region: HisKA_3; pfam07730 318167001093 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 318167001094 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 318167001095 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 318167001096 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 318167001097 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 318167001098 AMP-binding enzyme; Region: AMP-binding; cl15778 318167001099 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 318167001100 homotrimer interaction site [polypeptide binding]; other site 318167001101 putative active site [active] 318167001102 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 318167001103 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 318167001104 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 318167001105 synthetase active site [active] 318167001106 NTP binding site [chemical binding]; other site 318167001107 metal binding site [ion binding]; metal-binding site 318167001108 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 318167001109 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 318167001110 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 318167001111 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 318167001112 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 318167001113 catalytic site [active] 318167001114 G-X2-G-X-G-K; other site 318167001115 Protein of unknown function (DUF805); Region: DUF805; cl01224 318167001116 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167001117 dUMP phosphatase; Provisional; Region: PRK09449 318167001118 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 318167001119 motif II; other site 318167001120 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 318167001121 Transglycosylase; Region: Transgly; cl07896 318167001122 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 318167001123 Cell division protein FtsA; Region: FtsA; cl11496 318167001124 Competence protein A; Region: Competence_A; pfam11104 318167001125 Cell division protein FtsA; Region: FtsA; cl11496 318167001126 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 318167001127 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 318167001128 Pilus assembly protein, PilO; Region: PilO; cl01234 318167001129 Pilus assembly protein, PilP; Region: PilP; cl01235 318167001130 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 318167001131 Secretin and TonB N terminus short domain; Region: STN; cl06624 318167001132 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 318167001133 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 318167001134 shikimate kinase; Reviewed; Region: aroK; PRK00131 318167001135 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 318167001136 ADP binding site [chemical binding]; other site 318167001137 magnesium binding site [ion binding]; other site 318167001138 putative shikimate binding site; other site 318167001139 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 318167001140 active site 318167001141 dimer interface [polypeptide binding]; other site 318167001142 metal binding site [ion binding]; metal-binding site 318167001143 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167001144 AAA domain; Region: AAA_22; pfam13401 318167001145 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167001146 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 318167001147 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 318167001148 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 318167001149 substrate binding site [chemical binding]; other site 318167001150 hexamer interface [polypeptide binding]; other site 318167001151 metal binding site [ion binding]; metal-binding site 318167001152 phosphoglycolate phosphatase; Provisional; Region: PRK13222 318167001153 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 318167001154 motif II; other site 318167001155 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 318167001156 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 318167001157 active site 318167001158 HIGH motif; other site 318167001159 dimer interface [polypeptide binding]; other site 318167001160 KMSKS motif; other site 318167001161 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 318167001162 Helix-turn-helix domains; Region: HTH; cl00088 318167001163 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 318167001164 dimerization interface [polypeptide binding]; other site 318167001165 EamA-like transporter family; Region: EamA; cl01037 318167001166 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 318167001167 BON domain; Region: BON; cl02771 318167001168 BON domain; Region: BON; cl02771 318167001169 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 318167001170 dimer interface [polypeptide binding]; other site 318167001171 active site 318167001172 Restriction endonuclease; Region: Mrr_cat; cl00516 318167001173 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 318167001174 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 318167001175 putative ligand binding site [chemical binding]; other site 318167001176 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 318167001177 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 318167001178 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318167001179 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 318167001180 N-terminal plug; other site 318167001181 ligand-binding site [chemical binding]; other site 318167001182 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 318167001183 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 318167001184 N-terminal plug; other site 318167001185 ligand-binding site [chemical binding]; other site 318167001186 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 318167001187 Uncharacterized conserved protein [Function unknown]; Region: COG2966 318167001188 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 318167001189 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 318167001190 MAPEG family; Region: MAPEG; cl09190 318167001191 hypothetical protein; Provisional; Region: PRK01254 318167001192 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 318167001193 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 318167001194 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318167001195 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318167001196 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318167001197 Family of unknown function (DUF500); Region: DUF500; cl01109 318167001198 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 318167001199 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 318167001200 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 318167001201 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167001202 active site 318167001203 ATP binding site [chemical binding]; other site 318167001204 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 318167001205 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 318167001206 catalytic residues [active] 318167001207 hinge region; other site 318167001208 alpha helical domain; other site 318167001209 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 318167001210 Protein of unknown function (DUF904); Region: DUF904; cl11531 318167001211 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 318167001212 homotrimer interaction site [polypeptide binding]; other site 318167001213 putative active site [active] 318167001214 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 318167001215 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 318167001216 homodimer interface [polypeptide binding]; other site 318167001217 substrate-cofactor binding pocket; other site 318167001218 catalytic residue [active] 318167001219 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 318167001220 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 318167001221 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 318167001222 PAS domain S-box; Region: sensory_box; TIGR00229 318167001223 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 318167001224 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 318167001225 PAS domain; Region: PAS_9; pfam13426 318167001226 putative active site [active] 318167001227 heme pocket [chemical binding]; other site 318167001228 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167001229 metal binding site [ion binding]; metal-binding site 318167001230 active site 318167001231 I-site; other site 318167001232 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 318167001233 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 318167001234 putative acyl-acceptor binding pocket; other site 318167001235 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 318167001236 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 318167001237 putative acyl-acceptor binding pocket; other site 318167001238 Mg chelatase-related protein; Region: TIGR00368 318167001239 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 318167001240 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167001241 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 318167001242 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 318167001243 Domain of unknown function DUF21; Region: DUF21; pfam01595 318167001244 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 318167001245 Transporter associated domain; Region: CorC_HlyC; cl08393 318167001246 Helix-turn-helix domains; Region: HTH; cl00088 318167001247 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 318167001248 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 318167001249 putative dimerization interface [polypeptide binding]; other site 318167001250 ketol-acid reductoisomerase; Validated; Region: PRK05225 318167001251 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167001252 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 318167001253 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 318167001254 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 318167001255 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 318167001256 PYR/PP interface [polypeptide binding]; other site 318167001257 dimer interface [polypeptide binding]; other site 318167001258 TPP binding site [chemical binding]; other site 318167001259 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 318167001260 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 318167001261 TPP-binding site [chemical binding]; other site 318167001262 dimer interface [polypeptide binding]; other site 318167001263 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 318167001264 Dehydratase family; Region: ILVD_EDD; cl00340 318167001265 threonine dehydratase; Reviewed; Region: PRK09224 318167001266 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 318167001267 tetramer interface [polypeptide binding]; other site 318167001268 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167001269 catalytic residue [active] 318167001270 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 318167001271 putative Ile/Val binding site [chemical binding]; other site 318167001272 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 318167001273 putative Ile/Val binding site [chemical binding]; other site 318167001274 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 318167001275 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 318167001276 homodimer interface [polypeptide binding]; other site 318167001277 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167001278 catalytic residue [active] 318167001279 Membrane fusogenic activity; Region: BMFP; cl01115 318167001280 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 318167001281 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167001282 Family description; Region: UvrD_C_2; cl15862 318167001283 GAF domain; Region: GAF_2; pfam13185 318167001284 GAF domain; Region: GAF; cl15785 318167001285 GAF domain; Region: GAF_2; pfam13185 318167001286 GAF domain; Region: GAF; cl15785 318167001287 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167001288 metal binding site [ion binding]; metal-binding site 318167001289 active site 318167001290 I-site; other site 318167001291 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 318167001292 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 318167001293 dimerization interface [polypeptide binding]; other site 318167001294 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167001295 metal binding site [ion binding]; metal-binding site 318167001296 active site 318167001297 I-site; other site 318167001298 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 318167001299 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 318167001300 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167001301 ligand binding site [chemical binding]; other site 318167001302 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 318167001303 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 318167001304 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 318167001305 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 318167001306 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 318167001307 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 318167001308 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318167001309 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 318167001310 Walker A/P-loop; other site 318167001311 ATP binding site [chemical binding]; other site 318167001312 Q-loop/lid; other site 318167001313 ABC transporter signature motif; other site 318167001314 Walker B; other site 318167001315 D-loop; other site 318167001316 H-loop/switch region; other site 318167001317 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001318 Ca2+ binding site [ion binding]; other site 318167001319 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001320 Ca2+ binding site [ion binding]; other site 318167001321 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001322 Ca2+ binding site [ion binding]; other site 318167001323 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001324 Ca2+ binding site [ion binding]; other site 318167001325 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001326 Ca2+ binding site [ion binding]; other site 318167001327 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001328 Ca2+ binding site [ion binding]; other site 318167001329 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001330 Ca2+ binding site [ion binding]; other site 318167001331 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001332 Ca2+ binding site [ion binding]; other site 318167001333 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001334 Ca2+ binding site [ion binding]; other site 318167001335 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001336 Ca2+ binding site [ion binding]; other site 318167001337 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001338 Ca2+ binding site [ion binding]; other site 318167001339 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001340 Ca2+ binding site [ion binding]; other site 318167001341 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001342 Ca2+ binding site [ion binding]; other site 318167001343 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001344 Ca2+ binding site [ion binding]; other site 318167001345 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001346 Ca2+ binding site [ion binding]; other site 318167001347 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001348 Ca2+ binding site [ion binding]; other site 318167001349 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001350 Ca2+ binding site [ion binding]; other site 318167001351 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001352 Ca2+ binding site [ion binding]; other site 318167001353 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001354 Ca2+ binding site [ion binding]; other site 318167001355 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001356 Ca2+ binding site [ion binding]; other site 318167001357 Cadherin repeat-like domain; Region: CA_like; cl15786 318167001358 Ca2+ binding site [ion binding]; other site 318167001359 VCBS repeat; Region: VCBS_repeat; TIGR01965 318167001360 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 318167001361 metal ion-dependent adhesion site (MIDAS); other site 318167001362 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 318167001363 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 318167001364 HemY protein N-terminus; Region: HemY_N; pfam07219 318167001365 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 318167001366 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 318167001367 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 318167001368 active site 318167001369 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 318167001370 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 318167001371 domain interfaces; other site 318167001372 active site 318167001373 adenylate cyclase; Provisional; Region: cyaA; PRK09450 318167001374 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 318167001375 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 318167001376 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; cd00503 318167001377 putative iron binding site [ion binding]; other site 318167001378 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 318167001379 diaminopimelate decarboxylase; Region: lysA; TIGR01048 318167001380 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 318167001381 active site 318167001382 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318167001383 substrate binding site [chemical binding]; other site 318167001384 catalytic residues [active] 318167001385 dimer interface [polypeptide binding]; other site 318167001386 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 318167001387 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 318167001388 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 318167001389 GAF domain; Region: GAF; cl15785 318167001390 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 318167001391 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 318167001392 active site 318167001393 Int/Topo IB signature motif; other site 318167001394 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 318167001395 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 318167001396 motif II; other site 318167001397 Divergent AAA domain; Region: AAA_4; pfam04326 318167001398 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 318167001399 mutatrotase, YjhT family; Region: muta_rot_YjhT; TIGR03547 318167001400 Kelch motif; Region: Kelch_1; cl02701 318167001401 DNA helicase IV; Provisional; Region: helD; PRK11054 318167001402 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 318167001403 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167001404 DNA helicase IV; Provisional; Region: helD; PRK11054 318167001405 Family description; Region: UvrD_C_2; cl15862 318167001406 DNA topoisomerase I/SWI domain fusion protein; Validated; Region: PRK06319 318167001407 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 318167001408 Helix-turn-helix domains; Region: HTH; cl00088 318167001409 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 318167001410 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 318167001411 FMN binding site [chemical binding]; other site 318167001412 active site 318167001413 catalytic residues [active] 318167001414 substrate binding site [chemical binding]; other site 318167001415 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 318167001416 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13554 318167001417 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 318167001418 distal heme binding site [chemical binding]; other site 318167001419 proximal heme binding site [chemical binding]; other site 318167001420 dimer interface [polypeptide binding]; other site 318167001421 Iron-sulfur protein interface; other site 318167001422 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 318167001423 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167001424 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 318167001425 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 318167001426 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 318167001427 transcription termination factor Rho; Provisional; Region: rho; PRK09376 318167001428 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 318167001429 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 318167001430 RNA binding site [nucleotide binding]; other site 318167001431 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 318167001432 multimer interface [polypeptide binding]; other site 318167001433 Walker A motif; other site 318167001434 ATP binding site [chemical binding]; other site 318167001435 Walker B motif; other site 318167001436 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 318167001437 catalytic residues [active] 318167001438 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 318167001439 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 318167001440 ATP binding site [chemical binding]; other site 318167001441 Mg++ binding site [ion binding]; other site 318167001442 motif III; other site 318167001443 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 318167001444 nucleotide binding region [chemical binding]; other site 318167001445 ATP-binding site [chemical binding]; other site 318167001446 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 318167001447 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 318167001448 catalytic residues [active] 318167001449 Integrase core domain; Region: rve; cl01316 318167001450 Integrase core domain; Region: rve_3; cl15866 318167001451 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 318167001452 dimer interface [polypeptide binding]; other site 318167001453 allosteric magnesium binding site [ion binding]; other site 318167001454 active site 318167001455 aspartate-rich active site metal binding site; other site 318167001456 Schiff base residues; other site 318167001457 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 318167001458 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 318167001459 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167001460 metal binding site [ion binding]; metal-binding site 318167001461 active site 318167001462 I-site; other site 318167001463 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 318167001464 active site 318167001465 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 318167001466 sec-independent translocase; Provisional; Region: tatB; PRK00404 318167001467 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 318167001468 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 318167001469 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 318167001470 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167001471 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 318167001472 SCP-2 sterol transfer family; Region: SCP2; cl01225 318167001473 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 318167001474 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 318167001475 S-adenosylmethionine binding site [chemical binding]; other site 318167001476 Arginase family; Region: Arginase; cl00306 318167001477 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 318167001478 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 318167001479 active site 318167001480 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 318167001481 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; cl11478 318167001482 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 318167001483 substrate binding site [chemical binding]; other site 318167001484 active site 318167001485 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 318167001486 dimer interface [polypeptide binding]; other site 318167001487 phosphorylation site [posttranslational modification] 318167001488 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 318167001489 ATP binding site [chemical binding]; other site 318167001490 Mg2+ binding site [ion binding]; other site 318167001491 G-X-G motif; other site 318167001492 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318167001493 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167001494 active site 318167001495 phosphorylation site [posttranslational modification] 318167001496 intermolecular recognition site; other site 318167001497 dimerization interface [polypeptide binding]; other site 318167001498 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 318167001499 DNA binding site [nucleotide binding] 318167001500 Spondin_N; Region: Spond_N; pfam06468 318167001501 Spondin_N; Region: Spond_N; pfam06468 318167001502 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167001503 FAD dependent oxidoreductase; Region: DAO; pfam01266 318167001504 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 318167001505 Protein of unknown function (DUF3353); Region: DUF3353; pfam11833 318167001506 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 318167001507 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 318167001508 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 318167001509 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 318167001510 purine monophosphate binding site [chemical binding]; other site 318167001511 dimer interface [polypeptide binding]; other site 318167001512 putative catalytic residues [active] 318167001513 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 318167001514 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 318167001515 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 318167001516 DNA binding residues [nucleotide binding] 318167001517 dimer interface [polypeptide binding]; other site 318167001518 metal binding site [ion binding]; metal-binding site 318167001519 Predicted permease; Region: DUF318; pfam03773 318167001520 Predicted permease; Region: DUF318; pfam03773 318167001521 LysR family transcriptional regulator; Provisional; Region: PRK14997 318167001522 Helix-turn-helix domains; Region: HTH; cl00088 318167001523 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 318167001524 putative effector binding pocket; other site 318167001525 dimerization interface [polypeptide binding]; other site 318167001526 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 318167001527 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 318167001528 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 318167001529 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 318167001530 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 318167001531 putative substrate translocation pore; other site 318167001532 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 318167001533 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167001534 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 318167001535 Coenzyme A binding pocket [chemical binding]; other site 318167001536 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 318167001537 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 318167001538 eyelet of channel; other site 318167001539 trimer interface [polypeptide binding]; other site 318167001540 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 318167001541 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 318167001542 putative ATP binding site [chemical binding]; other site 318167001543 putative substrate interface [chemical binding]; other site 318167001544 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 318167001545 dimer interface [polypeptide binding]; other site 318167001546 phosphorylation site [posttranslational modification] 318167001547 sensory histidine kinase CreC; Provisional; Region: PRK11100 318167001548 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 318167001549 ATP binding site [chemical binding]; other site 318167001550 Mg2+ binding site [ion binding]; other site 318167001551 G-X-G motif; other site 318167001552 Superinfection exclusion protein B; Region: SieB; pfam14163 318167001553 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 318167001554 Activator of aromatic catabolism; Region: XylR_N; pfam06505 318167001555 Heme NO binding; Region: HNOB; cl15268 318167001556 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 318167001557 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 318167001558 Walker A motif; other site 318167001559 ATP binding site [chemical binding]; other site 318167001560 Walker B motif; other site 318167001561 arginine finger; other site 318167001562 Helix-turn-helix domains; Region: HTH; cl00088 318167001563 Porin subfamily; Region: Porin_2; pfam02530 318167001564 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 318167001565 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167001566 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 318167001567 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167001568 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 318167001569 putative active site [active] 318167001570 catalytic triad [active] 318167001571 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined; Region: PA_subtilisin_1; cd04818 318167001572 PA/protease or protease-like domain interface [polypeptide binding]; other site 318167001573 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 318167001574 catalytic residues [active] 318167001575 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 318167001576 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001577 Ca2+ binding site [ion binding]; other site 318167001578 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 318167001579 Helix-turn-helix domains; Region: HTH; cl00088 318167001580 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 318167001581 active site 318167001582 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 318167001583 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167001584 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 318167001585 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318167001586 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 318167001587 peroxiredoxin; Region: AhpC; TIGR03137 318167001588 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 318167001589 dimer interface [polypeptide binding]; other site 318167001590 decamer (pentamer of dimers) interface [polypeptide binding]; other site 318167001591 catalytic triad [active] 318167001592 peroxidatic and resolving cysteines [active] 318167001593 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 318167001594 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 318167001595 catalytic residue [active] 318167001596 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 318167001597 catalytic residues [active] 318167001598 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167001599 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 318167001600 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167001601 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167001602 dimer interface [polypeptide binding]; other site 318167001603 putative CheW interface [polypeptide binding]; other site 318167001604 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 318167001605 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 318167001606 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 318167001607 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 318167001608 AMP binding site [chemical binding]; other site 318167001609 metal binding site [ion binding]; metal-binding site 318167001610 active site 318167001611 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 318167001612 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 318167001613 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 318167001614 two-component response regulator; Provisional; Region: PRK11173 318167001615 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167001616 active site 318167001617 phosphorylation site [posttranslational modification] 318167001618 intermolecular recognition site; other site 318167001619 dimerization interface [polypeptide binding]; other site 318167001620 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 318167001621 DNA binding site [nucleotide binding] 318167001622 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 318167001623 aspartate kinase III; Validated; Region: PRK09084 318167001624 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 318167001625 nucleotide binding site [chemical binding]; other site 318167001626 substrate binding site [chemical binding]; other site 318167001627 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 318167001628 dimer interface [polypeptide binding]; other site 318167001629 allosteric regulatory binding pocket; other site 318167001630 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 318167001631 dimer interface [polypeptide binding]; other site 318167001632 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 318167001633 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 318167001634 active site 318167001635 Zn binding site [ion binding]; other site 318167001636 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 318167001637 active site 318167001638 putative substrate binding region [chemical binding]; other site 318167001639 protein structure with unknown function; Region: DUF4144; pfam13642 318167001640 Protein of unknown function (DUF342); Region: DUF342; pfam03961 318167001641 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 318167001642 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 318167001643 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 318167001644 S-adenosylmethionine binding site [chemical binding]; other site 318167001645 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 318167001646 Alkaline phosphatase homologues; Region: alkPPc; smart00098 318167001647 active site 318167001648 dimer interface [polypeptide binding]; other site 318167001649 glutathione synthetase; Provisional; Region: PRK05246 318167001650 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 318167001651 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318167001652 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 318167001653 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 318167001654 DNA-specific endonuclease I; Provisional; Region: PRK15137 318167001655 Endonuclease I; Region: Endonuclease_1; cl01003 318167001656 hypothetical protein; Provisional; Region: PRK04860 318167001657 SprT homologues; Region: SprT; cl01182 318167001658 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 318167001659 putative substrate binding pocket [chemical binding]; other site 318167001660 AC domain interface; other site 318167001661 catalytic triad [active] 318167001662 AB domain interface; other site 318167001663 interchain disulfide; other site 318167001664 LysR family transcriptional regulator; Provisional; Region: PRK14997 318167001665 Helix-turn-helix domains; Region: HTH; cl00088 318167001666 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 318167001667 putative effector binding pocket; other site 318167001668 dimerization interface [polypeptide binding]; other site 318167001669 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 318167001670 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 318167001671 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 318167001672 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 318167001673 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318167001674 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 318167001675 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 318167001676 carboxyltransferase (CT) interaction site; other site 318167001677 biotinylation site [posttranslational modification]; other site 318167001678 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318167001679 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 318167001680 substrate binding pocket [chemical binding]; other site 318167001681 membrane-bound complex binding site; other site 318167001682 hinge residues; other site 318167001683 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167001684 metal binding site [ion binding]; metal-binding site 318167001685 active site 318167001686 I-site; other site 318167001687 elongation factor G; Reviewed; Region: PRK00007 318167001688 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 318167001689 G1 box; other site 318167001690 putative GEF interaction site [polypeptide binding]; other site 318167001691 GTP/Mg2+ binding site [chemical binding]; other site 318167001692 Switch I region; other site 318167001693 G2 box; other site 318167001694 G3 box; other site 318167001695 Switch II region; other site 318167001696 G4 box; other site 318167001697 G5 box; other site 318167001698 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 318167001699 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 318167001700 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 318167001701 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167001702 Helix-turn-helix domains; Region: HTH; cl00088 318167001703 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 318167001704 putative dimerization interface [polypeptide binding]; other site 318167001705 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 318167001706 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 318167001707 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 318167001708 [4Fe-4S] binding site [ion binding]; other site 318167001709 molybdopterin cofactor binding site; other site 318167001710 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 318167001711 molybdopterin cofactor binding site; other site 318167001712 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 318167001713 FtsX-like permease family; Region: FtsX; cl15850 318167001714 FtsX-like permease family; Region: FtsX; cl15850 318167001715 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 318167001716 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 318167001717 Walker A/P-loop; other site 318167001718 ATP binding site [chemical binding]; other site 318167001719 Q-loop/lid; other site 318167001720 ABC transporter signature motif; other site 318167001721 Walker B; other site 318167001722 D-loop; other site 318167001723 H-loop/switch region; other site 318167001724 putative global regulator; Reviewed; Region: PRK09559 318167001725 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 318167001726 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 318167001727 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167001728 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 318167001729 L-serine binding site [chemical binding]; other site 318167001730 ACT domain interface; other site 318167001731 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 318167001732 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318167001733 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 318167001734 DNA binding residues [nucleotide binding] 318167001735 dimerization interface [polypeptide binding]; other site 318167001736 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 318167001737 CoenzymeA binding site [chemical binding]; other site 318167001738 subunit interaction site [polypeptide binding]; other site 318167001739 PHB binding site; other site 318167001740 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 318167001741 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 318167001742 tetramer interface [polypeptide binding]; other site 318167001743 heme binding pocket [chemical binding]; other site 318167001744 NADPH binding site [chemical binding]; other site 318167001745 Uncharacterized conserved protein [Function unknown]; Region: COG3025 318167001746 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 318167001747 putative active site [active] 318167001748 putative metal binding residues [ion binding]; other site 318167001749 signature motif; other site 318167001750 putative triphosphate binding site [ion binding]; other site 318167001751 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 318167001752 Phosphate transporter family; Region: PHO4; cl00396 318167001753 Phosphate transporter family; Region: PHO4; cl00396 318167001754 SH3 domain-containing protein; Provisional; Region: PRK10884 318167001755 Bacterial SH3 domain; Region: SH3_3; cl02551 318167001756 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 318167001757 Proline dehydrogenase; Region: Pro_dh; cl03282 318167001758 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 318167001759 Glutamate binding site [chemical binding]; other site 318167001760 NAD binding site [chemical binding]; other site 318167001761 catalytic residues [active] 318167001762 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 318167001763 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 318167001764 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 318167001765 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 318167001766 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 318167001767 probable active site [active] 318167001768 Peptidase S46; Region: Peptidase_S46; pfam10459 318167001769 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 318167001770 aromatic amino acid transport protein; Region: araaP; TIGR00837 318167001771 Predicted membrane protein [Function unknown]; Region: COG2119 318167001772 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 318167001773 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 318167001774 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 318167001775 Transcriptional regulators [Transcription]; Region: MarR; COG1846 318167001776 Helix-turn-helix domains; Region: HTH; cl00088 318167001777 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 318167001778 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 318167001779 Chromate transporter; Region: Chromate_transp; pfam02417 318167001780 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 318167001781 Chromate transporter; Region: Chromate_transp; pfam02417 318167001782 Cache domain; Region: Cache_2; cl07034 318167001783 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 318167001784 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 318167001785 dimerization interface [polypeptide binding]; other site 318167001786 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167001787 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167001788 dimer interface [polypeptide binding]; other site 318167001789 putative CheW interface [polypeptide binding]; other site 318167001790 peptide chain release factor 2; Provisional; Region: PRK07342 318167001791 RF-1 domain; Region: RF-1; cl02875 318167001792 RF-1 domain; Region: RF-1; cl02875 318167001793 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 318167001794 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 318167001795 dimer interface [polypeptide binding]; other site 318167001796 putative anticodon binding site; other site 318167001797 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 318167001798 motif 1; other site 318167001799 active site 318167001800 motif 2; other site 318167001801 motif 3; other site 318167001802 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 318167001803 CoenzymeA binding site [chemical binding]; other site 318167001804 subunit interaction site [polypeptide binding]; other site 318167001805 PHB binding site; other site 318167001806 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 318167001807 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167001808 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 318167001809 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 318167001810 active site residue [active] 318167001811 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 318167001812 metal binding site 2 [ion binding]; metal-binding site 318167001813 putative DNA binding helix; other site 318167001814 metal binding site 1 [ion binding]; metal-binding site 318167001815 dimer interface [polypeptide binding]; other site 318167001816 structural Zn2+ binding site [ion binding]; other site 318167001817 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 318167001818 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 318167001819 structural tetrad; other site 318167001820 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 318167001821 active site 318167001822 substrate binding pocket [chemical binding]; other site 318167001823 dimer interface [polypeptide binding]; other site 318167001824 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 318167001825 PAS fold; Region: PAS_4; pfam08448 318167001826 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 318167001827 putative active site [active] 318167001828 heme pocket [chemical binding]; other site 318167001829 PAS domain S-box; Region: sensory_box; TIGR00229 318167001830 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 318167001831 putative active site [active] 318167001832 heme pocket [chemical binding]; other site 318167001833 PAS domain S-box; Region: sensory_box; TIGR00229 318167001834 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 318167001835 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 318167001836 PAS domain; Region: PAS_9; pfam13426 318167001837 putative active site [active] 318167001838 heme pocket [chemical binding]; other site 318167001839 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167001840 metal binding site [ion binding]; metal-binding site 318167001841 active site 318167001842 I-site; other site 318167001843 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 318167001844 putative carboxyl-terminal-processing protease, deltaproteobacterial; Region: prc_long_Delta; TIGR03900 318167001845 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 318167001846 Active site serine [active] 318167001847 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167001848 ligand binding site [chemical binding]; other site 318167001849 Predicted membrane protein [Function unknown]; Region: COG2860 318167001850 UPF0126 domain; Region: UPF0126; pfam03458 318167001851 UPF0126 domain; Region: UPF0126; pfam03458 318167001852 Mediator complex subunit 15; Region: Med15_fungi; pfam05397 318167001853 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318167001854 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 318167001855 DNA binding residues [nucleotide binding] 318167001856 dimerization interface [polypeptide binding]; other site 318167001857 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 318167001858 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 318167001859 RNA binding surface [nucleotide binding]; other site 318167001860 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 318167001861 probable active site [active] 318167001862 Protein of unknown function DUF72; Region: DUF72; cl00777 318167001863 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 318167001864 Transglycosylase; Region: Transgly; cl07896 318167001865 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 318167001866 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 318167001867 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318167001868 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167001869 DEAD-like helicases superfamily; Region: DEXDc; smart00487 318167001870 ATP binding site [chemical binding]; other site 318167001871 putative Mg++ binding site [ion binding]; other site 318167001872 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 318167001873 nucleotide binding region [chemical binding]; other site 318167001874 ATP-binding site [chemical binding]; other site 318167001875 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 318167001876 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_1; cd08352 318167001877 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167001878 putative metal binding site [ion binding]; other site 318167001879 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 318167001880 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 318167001881 N-terminal plug; other site 318167001882 ligand-binding site [chemical binding]; other site 318167001883 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 318167001884 Polysulphide reductase, NrfD; Region: NrfD; cl01295 318167001885 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 318167001886 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 318167001887 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 318167001888 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 318167001889 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167001890 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 318167001891 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 318167001892 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 318167001893 Uncharacterized protein family (UPF0231); Region: UPF0231; cl11474 318167001894 transcriptional regulator NarL; Provisional; Region: PRK10651 318167001895 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167001896 active site 318167001897 phosphorylation site [posttranslational modification] 318167001898 intermolecular recognition site; other site 318167001899 dimerization interface [polypeptide binding]; other site 318167001900 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 318167001901 DNA binding residues [nucleotide binding] 318167001902 dimerization interface [polypeptide binding]; other site 318167001903 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 318167001904 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 318167001905 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 318167001906 Histidine kinase; Region: HisKA_3; pfam07730 318167001907 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 318167001908 ATP binding site [chemical binding]; other site 318167001909 Mg2+ binding site [ion binding]; other site 318167001910 G-X-G motif; other site 318167001911 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 318167001912 Nitrogen regulatory protein P-II; Region: P-II; cl00412 318167001913 Nitrogen regulatory protein P-II; Region: P-II; smart00938 318167001914 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 318167001915 TPR repeat; Region: TPR_11; pfam13414 318167001916 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 318167001917 binding surface 318167001918 TPR motif; other site 318167001919 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 318167001920 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 318167001921 binding surface 318167001922 TPR motif; other site 318167001923 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318167001924 NeuB family; Region: NeuB; cl00496 318167001925 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 318167001926 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318167001927 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 318167001928 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167001929 Walker A/P-loop; other site 318167001930 ATP binding site [chemical binding]; other site 318167001931 Q-loop/lid; other site 318167001932 ABC transporter signature motif; other site 318167001933 Walker B; other site 318167001934 D-loop; other site 318167001935 H-loop/switch region; other site 318167001936 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 318167001937 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 318167001938 active site 318167001939 FMN binding site [chemical binding]; other site 318167001940 substrate binding site [chemical binding]; other site 318167001941 3Fe-4S cluster binding site [ion binding]; other site 318167001942 ferredoxin-NADP reductase; Provisional; Region: PRK10926 318167001943 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 318167001944 FAD binding pocket [chemical binding]; other site 318167001945 FAD binding motif [chemical binding]; other site 318167001946 phosphate binding motif [ion binding]; other site 318167001947 beta-alpha-beta structure motif; other site 318167001948 NAD binding pocket [chemical binding]; other site 318167001949 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 318167001950 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 318167001951 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 318167001952 dimer interface [polypeptide binding]; other site 318167001953 conserved gate region; other site 318167001954 putative PBP binding loops; other site 318167001955 ABC-ATPase subunit interface; other site 318167001956 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 318167001957 dimer interface [polypeptide binding]; other site 318167001958 conserved gate region; other site 318167001959 putative PBP binding loops; other site 318167001960 ABC-ATPase subunit interface; other site 318167001961 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 318167001962 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 318167001963 Walker A/P-loop; other site 318167001964 ATP binding site [chemical binding]; other site 318167001965 Q-loop/lid; other site 318167001966 ABC transporter signature motif; other site 318167001967 Walker B; other site 318167001968 D-loop; other site 318167001969 H-loop/switch region; other site 318167001970 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 318167001971 arginine repressor; Provisional; Region: PRK05066 318167001972 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 318167001973 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 318167001974 META domain; Region: META; cl01245 318167001975 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318167001976 S-adenosylmethionine synthetase; Validated; Region: PRK05250 318167001977 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 318167001978 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 318167001979 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 318167001980 transketolase; Reviewed; Region: PRK12753 318167001981 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 318167001982 TPP-binding site [chemical binding]; other site 318167001983 dimer interface [polypeptide binding]; other site 318167001984 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 318167001985 PYR/PP interface [polypeptide binding]; other site 318167001986 dimer interface [polypeptide binding]; other site 318167001987 TPP binding site [chemical binding]; other site 318167001988 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 318167001989 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 318167001990 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167001991 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 318167001992 Phosphoglycerate kinase; Region: PGK; pfam00162 318167001993 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 318167001994 substrate binding site [chemical binding]; other site 318167001995 hinge regions; other site 318167001996 ADP binding site [chemical binding]; other site 318167001997 catalytic site [active] 318167001998 hypothetical protein; Provisional; Region: PRK08185 318167001999 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 318167002000 intersubunit interface [polypeptide binding]; other site 318167002001 active site 318167002002 zinc binding site [ion binding]; other site 318167002003 Na+ binding site [ion binding]; other site 318167002004 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 318167002005 MatE; Region: MatE; cl10513 318167002006 MatE; Region: MatE; cl10513 318167002007 Protein of unknown function, DUF481; Region: DUF481; cl01213 318167002008 PAS domain; Region: PAS_9; pfam13426 318167002009 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167002010 I-site; other site 318167002011 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 318167002012 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 318167002013 FeS/SAM binding site; other site 318167002014 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318167002015 Protein export membrane protein; Region: SecD_SecF; cl14618 318167002016 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167002017 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 318167002018 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 318167002019 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 318167002020 ATP binding site [chemical binding]; other site 318167002021 Mg++ binding site [ion binding]; other site 318167002022 motif III; other site 318167002023 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 318167002024 nucleotide binding region [chemical binding]; other site 318167002025 ATP-binding site [chemical binding]; other site 318167002026 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 318167002027 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 318167002028 S-adenosylmethionine binding site [chemical binding]; other site 318167002029 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 318167002030 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 318167002031 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 318167002032 active site 318167002033 Int/Topo IB signature motif; other site 318167002034 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 318167002035 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 318167002036 dimerization domain [polypeptide binding]; other site 318167002037 dimer interface [polypeptide binding]; other site 318167002038 catalytic residues [active] 318167002039 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 318167002040 DHH family; Region: DHH; pfam01368 318167002041 DHHA1 domain; Region: DHHA1; pfam02272 318167002042 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 318167002043 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 318167002044 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 318167002045 RNA binding surface [nucleotide binding]; other site 318167002046 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 318167002047 active site 318167002048 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 318167002049 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 318167002050 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 318167002051 Clp amino terminal domain; Region: Clp_N; pfam02861 318167002052 Clp amino terminal domain; Region: Clp_N; pfam02861 318167002053 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 318167002054 Walker A motif; other site 318167002055 ATP binding site [chemical binding]; other site 318167002056 Walker B motif; other site 318167002057 arginine finger; other site 318167002058 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 318167002059 Walker A motif; other site 318167002060 ATP binding site [chemical binding]; other site 318167002061 Walker B motif; other site 318167002062 arginine finger; other site 318167002063 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 318167002064 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 318167002065 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 318167002066 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 318167002067 Integrase core domain; Region: rve; cl01316 318167002068 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 318167002069 Helix-turn-helix domains; Region: HTH; cl00088 318167002070 Winged helix-turn helix; Region: HTH_33; pfam13592 318167002071 Integrase core domain; Region: rve; cl01316 318167002072 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 318167002073 Helix-turn-helix domains; Region: HTH; cl00088 318167002074 Winged helix-turn helix; Region: HTH_33; pfam13592 318167002075 Protein of unknown function, DUF607; Region: DUF607; pfam04678 318167002076 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 318167002077 eyelet of channel; other site 318167002078 trimer interface [polypeptide binding]; other site 318167002079 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 318167002080 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 318167002081 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 318167002082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167002083 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 318167002084 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13554 318167002085 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 318167002086 Iron-sulfur protein interface; other site 318167002087 proximal heme binding site [chemical binding]; other site 318167002088 distal heme binding site [chemical binding]; other site 318167002089 dimer interface [polypeptide binding]; other site 318167002090 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 318167002091 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 318167002092 Aspartase; Region: Aspartase; cd01357 318167002093 active sites [active] 318167002094 tetramer interface [polypeptide binding]; other site 318167002095 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 318167002096 active site 318167002097 homotetramer interface [polypeptide binding]; other site 318167002098 homodimer interface [polypeptide binding]; other site 318167002099 Helix-turn-helix domains; Region: HTH; cl00088 318167002100 putative transposase OrfB; Reviewed; Region: PHA02517 318167002101 HTH-like domain; Region: HTH_21; pfam13276 318167002102 Integrase core domain; Region: rve; cl01316 318167002103 Integrase core domain; Region: rve_3; cl15866 318167002104 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 318167002105 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 318167002106 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 318167002107 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 318167002108 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 318167002109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 318167002110 YheO-like PAS domain; Region: PAS_6; pfam08348 318167002111 Helix-turn-helix domains; Region: HTH; cl00088 318167002112 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 318167002113 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 318167002114 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167002115 Coenzyme A binding pocket [chemical binding]; other site 318167002116 lipoyl synthase; Provisional; Region: PRK05481 318167002117 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 318167002118 FeS/SAM binding site; other site 318167002119 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 318167002120 Protein of unknown function (DUF493); Region: DUF493; cl01102 318167002121 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 318167002122 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 318167002123 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 318167002124 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 318167002125 Sporulation related domain; Region: SPOR; cl10051 318167002126 Transglycosylase SLT domain; Region: SLT_2; pfam13406 318167002127 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 318167002128 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318167002129 catalytic residue [active] 318167002130 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 318167002131 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 318167002132 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 318167002133 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 318167002134 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 318167002135 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 318167002136 Oligomerisation domain; Region: Oligomerisation; cl00519 318167002137 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 318167002138 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 318167002139 active site 318167002140 (T/H)XGH motif; other site 318167002141 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 318167002142 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 318167002143 Lipopolysaccharide-assembly; Region: LptE; cl01125 318167002144 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 318167002145 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 318167002146 HIGH motif; other site 318167002147 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 318167002148 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318167002149 active site 318167002150 KMSKS motif; other site 318167002151 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 318167002152 tRNA binding surface [nucleotide binding]; other site 318167002153 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 318167002154 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 318167002155 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 318167002156 putative active site [active] 318167002157 catalytic triad [active] 318167002158 putative dimer interface [polypeptide binding]; other site 318167002159 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 318167002160 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 318167002161 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 318167002162 Transporter associated domain; Region: CorC_HlyC; cl08393 318167002163 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 318167002164 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167002165 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 318167002166 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 318167002167 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 318167002168 FeS/SAM binding site; other site 318167002169 TRAM domain; Region: TRAM; cl01282 318167002170 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167002171 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK08849 318167002172 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 318167002173 putative active site [active] 318167002174 catalytic residue [active] 318167002175 GTP-binding protein YchF; Reviewed; Region: PRK09601 318167002176 YchF GTPase; Region: YchF; cd01900 318167002177 G1 box; other site 318167002178 GTP/Mg2+ binding site [chemical binding]; other site 318167002179 Switch I region; other site 318167002180 G2 box; other site 318167002181 Switch II region; other site 318167002182 G3 box; other site 318167002183 G4 box; other site 318167002184 G5 box; other site 318167002185 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 318167002186 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 318167002187 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 318167002188 active site 318167002189 nucleophile elbow; other site 318167002190 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 318167002191 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 318167002192 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318167002193 active site 318167002194 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 318167002195 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 318167002196 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 318167002197 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 318167002198 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 318167002199 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 318167002200 tRNA; other site 318167002201 putative tRNA binding site [nucleotide binding]; other site 318167002202 putative NADP binding site [chemical binding]; other site 318167002203 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 318167002204 peptide chain release factor 1; Validated; Region: prfA; PRK00591 318167002205 RF-1 domain; Region: RF-1; cl02875 318167002206 RF-1 domain; Region: RF-1; cl02875 318167002207 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 318167002208 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 318167002209 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 318167002210 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 318167002211 Tetratricopeptide repeat; Region: TPR_9; pfam13371 318167002212 Protein of unknown function (DUF819); Region: DUF819; cl02317 318167002213 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 318167002214 NeuB family; Region: NeuB; cl00496 318167002215 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 318167002216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167002217 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 318167002218 VanZ like family; Region: VanZ; cl01971 318167002219 Protein of unknown function (DUF520); Region: DUF520; cl00723 318167002220 Ribosome recycling factor; Region: RRF_GI; pfam12614 318167002221 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 318167002222 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 318167002223 DNA-binding site [nucleotide binding]; DNA binding site 318167002224 RNA-binding motif; other site 318167002225 TIGR03549 family protein; Region: TIGR03549 318167002226 OsmC-like protein; Region: OsmC; cl00767 318167002227 Uncharacterized conserved protein [Function unknown]; Region: COG1944; cl09146 318167002228 CotH protein; Region: CotH; pfam08757 318167002229 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 318167002230 lipid-transfer protein; Provisional; Region: PRK08256 318167002231 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 318167002232 active site 318167002233 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 318167002234 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 318167002235 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 318167002236 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 318167002237 catalytic residues [active] 318167002238 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 318167002239 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 318167002240 putative molybdopterin cofactor binding site [chemical binding]; other site 318167002241 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 318167002242 putative molybdopterin cofactor binding site; other site 318167002243 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 318167002244 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167002245 Helix-turn-helix domains; Region: HTH; cl00088 318167002246 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 318167002247 dimerization interface [polypeptide binding]; other site 318167002248 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 318167002249 HSP70 interaction site [polypeptide binding]; other site 318167002250 Helix-turn-helix domains; Region: HTH; cl00088 318167002251 putative transposase OrfB; Reviewed; Region: PHA02517 318167002252 HTH-like domain; Region: HTH_21; pfam13276 318167002253 Integrase core domain; Region: rve; cl01316 318167002254 Integrase core domain; Region: rve_3; cl15866 318167002255 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167002256 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 318167002257 dimer interface [polypeptide binding]; other site 318167002258 putative metal binding site [ion binding]; other site 318167002259 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 318167002260 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167002261 metal binding site [ion binding]; metal-binding site 318167002262 active site 318167002263 I-site; other site 318167002264 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 318167002265 nudix motif; other site 318167002266 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167002267 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 318167002268 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 318167002269 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 318167002270 putative catalytic cysteine [active] 318167002271 gamma-glutamyl kinase; Provisional; Region: PRK13402 318167002272 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 318167002273 nucleotide binding site [chemical binding]; other site 318167002274 homotetrameric interface [polypeptide binding]; other site 318167002275 putative phosphate binding site [ion binding]; other site 318167002276 putative allosteric binding site; other site 318167002277 PUA domain; Region: PUA; cl00607 318167002278 Sodium:solute symporter family; Region: SSF; cl00456 318167002279 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 318167002280 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167002281 Helix-turn-helix domains; Region: HTH; cl00088 318167002282 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 318167002283 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 318167002284 NADP binding site [chemical binding]; other site 318167002285 dimer interface [polypeptide binding]; other site 318167002286 regulatory protein CsrD; Provisional; Region: PRK11059 318167002287 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 318167002288 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167002289 metal binding site [ion binding]; metal-binding site 318167002290 active site 318167002291 I-site; other site 318167002292 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 318167002293 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 318167002294 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 318167002295 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 318167002296 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 318167002297 Penicillin amidase; Region: Penicil_amidase; pfam01804 318167002298 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 318167002299 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 318167002300 active site 318167002301 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 318167002302 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 318167002303 Carbon starvation protein CstA; Region: CstA; pfam02554 318167002304 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 318167002305 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 318167002306 4Fe-4S binding domain; Region: Fer4_5; pfam12801 318167002307 4Fe-4S binding domain; Region: Fer4_5; pfam12801 318167002308 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 318167002309 putative active site [active] 318167002310 Zn binding site [ion binding]; other site 318167002311 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167002312 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 318167002313 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167002314 Helix-turn-helix domains; Region: HTH; cl00088 318167002315 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 318167002316 putative effector binding pocket; other site 318167002317 dimerization interface [polypeptide binding]; other site 318167002318 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 318167002319 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 318167002320 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 318167002321 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; cl01792 318167002322 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 318167002323 DNA photolyase; Region: DNA_photolyase; pfam00875 318167002324 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 318167002325 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 318167002326 NADH(P)-binding; Region: NAD_binding_10; pfam13460 318167002327 NAD binding site [chemical binding]; other site 318167002328 substrate binding site [chemical binding]; other site 318167002329 putative active site [active] 318167002330 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 318167002331 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 318167002332 Helix-turn-helix domains; Region: HTH; cl00088 318167002333 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 318167002334 putative dimerization interface [polypeptide binding]; other site 318167002335 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 318167002336 gating phenylalanine in ion channel; other site 318167002337 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 318167002338 putative deacylase active site [active] 318167002339 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 318167002340 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 318167002341 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 318167002342 active site 318167002343 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 318167002344 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 318167002345 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 318167002346 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 318167002347 Sulfate transporter family; Region: Sulfate_transp; cl15842 318167002348 Sulfate transporter family; Region: Sulfate_transp; cl15842 318167002349 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 318167002350 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 318167002351 Ligand Binding Site [chemical binding]; other site 318167002352 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 318167002353 Ligand Binding Site [chemical binding]; other site 318167002354 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 318167002355 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 318167002356 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167002357 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167002358 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 318167002359 4Fe-4S binding domain; Region: Fer4; cl02805 318167002360 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 318167002361 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 318167002362 [4Fe-4S] binding site [ion binding]; other site 318167002363 molybdopterin cofactor binding site; other site 318167002364 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 318167002365 molybdopterin cofactor binding site; other site 318167002366 Protein of unknown function (DUF541); Region: SIMPL; cl01077 318167002367 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 318167002368 Helix-turn-helix domains; Region: HTH; cl00088 318167002369 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 318167002370 substrate binding pocket [chemical binding]; other site 318167002371 dimerization interface [polypeptide binding]; other site 318167002372 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 318167002373 intersubunit interface [polypeptide binding]; other site 318167002374 active site 318167002375 Zn2+ binding site [ion binding]; other site 318167002376 bile acid transporter; Region: bass; TIGR00841 318167002377 Membrane transport protein; Region: Mem_trans; cl09117 318167002378 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 318167002379 PAS domain S-box; Region: sensory_box; TIGR00229 318167002380 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167002381 metal binding site [ion binding]; metal-binding site 318167002382 active site 318167002383 I-site; other site 318167002384 Domain of unknown function (DUF1888); Region: DUF1888; pfam08985 318167002385 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 318167002386 DNA binding site [nucleotide binding] 318167002387 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167002388 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 318167002389 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 318167002390 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167002391 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 318167002392 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 318167002393 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 318167002394 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 318167002395 active site 318167002396 PAS fold; Region: PAS_4; pfam08448 318167002397 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 318167002398 putative active site [active] 318167002399 heme pocket [chemical binding]; other site 318167002400 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167002401 metal binding site [ion binding]; metal-binding site 318167002402 active site 318167002403 I-site; other site 318167002404 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 318167002405 Helix-turn-helix domains; Region: HTH; cl00088 318167002406 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 318167002407 Prostaglandin dehydrogenases; Region: PGDH; cd05288 318167002408 NAD(P) binding site [chemical binding]; other site 318167002409 substrate binding site [chemical binding]; other site 318167002410 dimer interface [polypeptide binding]; other site 318167002411 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 318167002412 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 318167002413 potential catalytic triad [active] 318167002414 conserved cys residue [active] 318167002415 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318167002416 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 318167002417 putative C-terminal domain interface [polypeptide binding]; other site 318167002418 putative GSH binding site (G-site) [chemical binding]; other site 318167002419 putative dimer interface [polypeptide binding]; other site 318167002420 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318167002421 N-terminal domain interface [polypeptide binding]; other site 318167002422 dimer interface [polypeptide binding]; other site 318167002423 substrate binding pocket (H-site) [chemical binding]; other site 318167002424 Protein of unknown function (DUF2806); Region: DUF2806; cl12560 318167002425 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 318167002426 putative substrate translocation pore; other site 318167002427 Imelysin; Region: Peptidase_M75; cl09159 318167002428 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 318167002429 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 318167002430 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167002431 Helix-turn-helix domains; Region: HTH; cl00088 318167002432 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 318167002433 putative effector binding pocket; other site 318167002434 dimerization interface [polypeptide binding]; other site 318167002435 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 318167002436 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 318167002437 active site 318167002438 catalytic tetrad [active] 318167002439 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 318167002440 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 318167002441 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 318167002442 active site 318167002443 catalytic site [active] 318167002444 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 318167002445 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 318167002446 catalytic residues [active] 318167002447 hinge region; other site 318167002448 alpha helical domain; other site 318167002449 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 318167002450 HSP70 interaction site [polypeptide binding]; other site 318167002451 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318167002452 active site 318167002453 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 318167002454 Peptidase family U32; Region: Peptidase_U32; cl03113 318167002455 Collagenase; Region: DUF3656; pfam12392 318167002456 Protein of unknown function (DUF3622); Region: DUF3622; pfam12286 318167002457 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 318167002458 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318167002459 N-terminal plug; other site 318167002460 ligand-binding site [chemical binding]; other site 318167002461 HDOD domain; Region: HDOD; pfam08668 318167002462 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167002463 Helix-turn-helix domains; Region: HTH; cl00088 318167002464 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 318167002465 putative dimerization interface [polypeptide binding]; other site 318167002466 Dodecin; Region: Dodecin; cl01328 318167002467 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 318167002468 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 318167002469 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167002470 metal binding site [ion binding]; metal-binding site 318167002471 active site 318167002472 I-site; other site 318167002473 Protein of unknown function (DUF3069); Region: DUF3069; pfam11269 318167002474 malate dehydrogenase; Provisional; Region: PRK13529 318167002475 Malic enzyme, N-terminal domain; Region: malic; pfam00390 318167002476 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 318167002477 NAD(P) binding site [chemical binding]; other site 318167002478 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 318167002479 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 318167002480 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 318167002481 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 318167002482 Bacterial PH domain; Region: DUF304; cl01348 318167002483 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318167002484 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 318167002485 N-terminal plug; other site 318167002486 ligand-binding site [chemical binding]; other site 318167002487 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318167002488 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 318167002489 putative C-terminal domain interface [polypeptide binding]; other site 318167002490 putative GSH binding site (G-site) [chemical binding]; other site 318167002491 putative dimer interface [polypeptide binding]; other site 318167002492 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318167002493 dimer interface [polypeptide binding]; other site 318167002494 N-terminal domain interface [polypeptide binding]; other site 318167002495 substrate binding pocket (H-site) [chemical binding]; other site 318167002496 Predicted transcriptional regulator [Transcription]; Region: COG2944 318167002497 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 318167002498 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 318167002499 metal binding triad [ion binding]; metal-binding site 318167002500 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 318167002501 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 318167002502 active site 318167002503 Zn binding site [ion binding]; other site 318167002504 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 318167002505 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 318167002506 RNA binding surface [nucleotide binding]; other site 318167002507 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 318167002508 active site 318167002509 uracil binding [chemical binding]; other site 318167002510 Uncharacterized conserved protein [Function unknown]; Region: COG3595 318167002511 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 318167002512 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 318167002513 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167002514 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 318167002515 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 318167002516 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167002517 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167002518 dimer interface [polypeptide binding]; other site 318167002519 putative CheW interface [polypeptide binding]; other site 318167002520 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 318167002521 tetramer (dimer of dimers) interface [polypeptide binding]; other site 318167002522 active site 318167002523 dimer interface [polypeptide binding]; other site 318167002524 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318167002525 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167002526 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 318167002527 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 318167002528 Cupin domain; Region: Cupin_2; cl09118 318167002529 Cupin domain; Region: Cupin_2; cl09118 318167002530 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 318167002531 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 318167002532 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318167002533 putative substrate translocation pore; other site 318167002534 HopJ type III effector protein; Region: HopJ; pfam08888 318167002535 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 318167002536 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 318167002537 Cytochrome c; Region: Cytochrom_C; cl11414 318167002538 Cytochrome c; Region: Cytochrom_C; cl11414 318167002539 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 318167002540 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 318167002541 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318167002542 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 318167002543 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318167002544 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 318167002545 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 318167002546 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167002547 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167002548 dimer interface [polypeptide binding]; other site 318167002549 putative CheW interface [polypeptide binding]; other site 318167002550 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 318167002551 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 318167002552 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 318167002553 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318167002554 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318167002555 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318167002556 Helix-turn-helix domains; Region: HTH; cl00088 318167002557 putative transposase OrfB; Reviewed; Region: PHA02517 318167002558 HTH-like domain; Region: HTH_21; pfam13276 318167002559 Integrase core domain; Region: rve; cl01316 318167002560 Integrase core domain; Region: rve_3; cl15866 318167002561 thioredoxin 2; Provisional; Region: PRK10996 318167002562 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 318167002563 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 318167002564 catalytic residues [active] 318167002565 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 318167002566 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 318167002567 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 318167002568 active site flap/lid [active] 318167002569 nucleophilic elbow; other site 318167002570 catalytic triad [active] 318167002571 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 318167002572 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 318167002573 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 318167002574 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 318167002575 substrate binding pocket [chemical binding]; other site 318167002576 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 318167002577 B12 binding site [chemical binding]; other site 318167002578 cobalt ligand [ion binding]; other site 318167002579 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 318167002580 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 318167002581 catalytic core [active] 318167002582 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 318167002583 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 318167002584 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 318167002585 Walker A/P-loop; other site 318167002586 ATP binding site [chemical binding]; other site 318167002587 Q-loop/lid; other site 318167002588 ABC transporter signature motif; other site 318167002589 Walker B; other site 318167002590 D-loop; other site 318167002591 H-loop/switch region; other site 318167002592 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 318167002593 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 318167002594 ABC-ATPase subunit interface; other site 318167002595 dimer interface [polypeptide binding]; other site 318167002596 putative PBP binding regions; other site 318167002597 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 318167002598 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 318167002599 putative dimer interface [polypeptide binding]; other site 318167002600 active site pocket [active] 318167002601 putative cataytic base [active] 318167002602 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 318167002603 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 318167002604 homotrimer interface [polypeptide binding]; other site 318167002605 Walker A motif; other site 318167002606 GTP binding site [chemical binding]; other site 318167002607 Walker B motif; other site 318167002608 cobyric acid synthase; Provisional; Region: PRK00784 318167002609 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167002610 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167002611 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 318167002612 catalytic triad [active] 318167002613 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167002614 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 318167002615 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 318167002616 homodimer interface [polypeptide binding]; other site 318167002617 Walker A motif; other site 318167002618 ATP binding site [chemical binding]; other site 318167002619 hydroxycobalamin binding site [chemical binding]; other site 318167002620 Walker B motif; other site 318167002621 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318167002622 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 318167002623 substrate binding pocket [chemical binding]; other site 318167002624 membrane-bound complex binding site; other site 318167002625 hinge residues; other site 318167002626 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 318167002627 dimerization interface [polypeptide binding]; other site 318167002628 putative DNA binding site [nucleotide binding]; other site 318167002629 putative Zn2+ binding site [ion binding]; other site 318167002630 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318167002631 NAD(P)+ dependent aldehyde dehydrogenase family; Region: ALDH; cd07078 318167002632 NAD(P) binding site [chemical binding]; other site 318167002633 catalytic residues [active] 318167002634 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 318167002635 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 318167002636 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 318167002637 active site 318167002638 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318167002639 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 318167002640 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167002641 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167002642 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 318167002643 binding surface 318167002644 Tetratricopeptide repeat; Region: TPR_16; pfam13432 318167002645 TPR motif; other site 318167002646 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 318167002647 binding surface 318167002648 TPR motif; other site 318167002649 TPR repeat; Region: TPR_11; pfam13414 318167002650 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 318167002651 Cupin domain; Region: Cupin_2; cl09118 318167002652 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12900 318167002653 SEC-C motif; Region: SEC-C; pfam02810 318167002654 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 318167002655 preprotein translocase subunit SecA; Reviewed; Region: PRK13107 318167002656 SEC-C motif; Region: SEC-C; pfam02810 318167002657 Isochorismatase family; Region: Isochorismatase; pfam00857 318167002658 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 318167002659 catalytic triad [active] 318167002660 dimer interface [polypeptide binding]; other site 318167002661 conserved cis-peptide bond; other site 318167002662 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 318167002663 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 318167002664 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 318167002665 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 318167002666 cobalamin binding residues [chemical binding]; other site 318167002667 putative BtuC binding residues; other site 318167002668 dimer interface [polypeptide binding]; other site 318167002669 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167002670 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 318167002671 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 318167002672 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 318167002673 Walker A/P-loop; other site 318167002674 ATP binding site [chemical binding]; other site 318167002675 Q-loop/lid; other site 318167002676 ABC transporter signature motif; other site 318167002677 Walker B; other site 318167002678 D-loop; other site 318167002679 H-loop/switch region; other site 318167002680 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 318167002681 FtsX-like permease family; Region: FtsX; cl15850 318167002682 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 318167002683 FtsX-like permease family; Region: FtsX; cl15850 318167002684 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318167002685 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167002686 active site 318167002687 phosphorylation site [posttranslational modification] 318167002688 intermolecular recognition site; other site 318167002689 dimerization interface [polypeptide binding]; other site 318167002690 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 318167002691 Walker A motif; other site 318167002692 ATP binding site [chemical binding]; other site 318167002693 Walker B motif; other site 318167002694 arginine finger; other site 318167002695 Helix-turn-helix domains; Region: HTH; cl00088 318167002696 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 318167002697 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 318167002698 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318167002699 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 318167002700 ATP binding site [chemical binding]; other site 318167002701 Mg2+ binding site [ion binding]; other site 318167002702 G-X-G motif; other site 318167002703 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 318167002704 Protein of unknown function (DUF692); Region: DUF692; cl01263 318167002705 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 318167002706 MAPEG family; Region: MAPEG; cl09190 318167002707 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 318167002708 putative uracil binding site [chemical binding]; other site 318167002709 putative active site [active] 318167002710 YcxB-like protein; Region: YcxB; pfam14317 318167002711 PII uridylyl-transferase; Provisional; Region: PRK05007 318167002712 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 318167002713 metal binding triad; other site 318167002714 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 318167002715 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 318167002716 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 318167002717 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 318167002718 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 318167002719 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 318167002720 active site 318167002721 uracil binding [chemical binding]; other site 318167002722 Helix-turn-helix domains; Region: HTH; cl00088 318167002723 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 318167002724 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 318167002725 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 318167002726 putative substrate translocation pore; other site 318167002727 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318167002728 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 318167002729 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 318167002730 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 318167002731 HIGH motif; other site 318167002732 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 318167002733 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 318167002734 active site 318167002735 KMSKS motif; other site 318167002736 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 318167002737 tRNA binding surface [nucleotide binding]; other site 318167002738 anticodon binding site; other site 318167002739 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 318167002740 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 318167002741 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167002742 Helix-turn-helix domains; Region: HTH; cl00088 318167002743 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 318167002744 putative effector binding pocket; other site 318167002745 putative dimerization interface [polypeptide binding]; other site 318167002746 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 318167002747 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167002748 NAD(P) binding site [chemical binding]; other site 318167002749 active site 318167002750 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 318167002751 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 318167002752 substrate binding pocket [chemical binding]; other site 318167002753 membrane-bound complex binding site; other site 318167002754 hinge residues; other site 318167002755 putative transporter; Provisional; Region: PRK11043 318167002756 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 318167002757 putative substrate translocation pore; other site 318167002758 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 318167002759 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 318167002760 dimerization interface [polypeptide binding]; other site 318167002761 multifunctional aminopeptidase A; Provisional; Region: PRK00913 318167002762 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 318167002763 interface (dimer of trimers) [polypeptide binding]; other site 318167002764 Substrate-binding/catalytic site; other site 318167002765 Zn-binding sites [ion binding]; other site 318167002766 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 318167002767 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 318167002768 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 318167002769 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 318167002770 RDD family; Region: RDD; cl00746 318167002771 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 318167002772 Protein of unknown function, DUF486; Region: DUF486; cl01236 318167002773 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 318167002774 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167002775 Coenzyme A binding pocket [chemical binding]; other site 318167002776 DsrE/DsrF-like family; Region: DrsE; cl00672 318167002777 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 318167002778 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318167002779 substrate binding pocket [chemical binding]; other site 318167002780 membrane-bound complex binding site; other site 318167002781 hinge residues; other site 318167002782 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 318167002783 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 318167002784 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167002785 Helix-turn-helix domains; Region: HTH; cl00088 318167002786 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 318167002787 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 318167002788 NAD(P) binding site [chemical binding]; other site 318167002789 catalytic residues [active] 318167002790 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 318167002791 Ligand Binding Site [chemical binding]; other site 318167002792 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 318167002793 Predicted membrane protein [Function unknown]; Region: COG3428 318167002794 Bacterial PH domain; Region: DUF304; cl01348 318167002795 Bacterial PH domain; Region: DUF304; cl01348 318167002796 Bacterial PH domain; Region: DUF304; cl01348 318167002797 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 318167002798 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 318167002799 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 318167002800 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 318167002801 BolA-like protein; Region: BolA; cl00386 318167002802 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 318167002803 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 318167002804 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 318167002805 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 318167002806 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 318167002807 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 318167002808 E3 interaction surface; other site 318167002809 lipoyl attachment site [posttranslational modification]; other site 318167002810 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 318167002811 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 318167002812 FMN-binding domain; Region: FMN_bind; cl01081 318167002813 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 318167002814 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 318167002815 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 318167002816 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 318167002817 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 318167002818 FAD binding pocket [chemical binding]; other site 318167002819 FAD binding motif [chemical binding]; other site 318167002820 phosphate binding motif [ion binding]; other site 318167002821 beta-alpha-beta structure motif; other site 318167002822 NAD binding pocket [chemical binding]; other site 318167002823 ApbE family; Region: ApbE; cl00643 318167002824 Protein of unknown function (DUF539); Region: DUF539; cl01129 318167002825 Protein of unknown function (DUF539); Region: DUF539; cl01129 318167002826 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 318167002827 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 318167002828 heme binding site [chemical binding]; other site 318167002829 ferroxidase pore; other site 318167002830 ferroxidase diiron center [ion binding]; other site 318167002831 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 318167002832 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 318167002833 heme binding site [chemical binding]; other site 318167002834 ferroxidase pore; other site 318167002835 ferroxidase diiron center [ion binding]; other site 318167002836 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; cl02529 318167002837 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 318167002838 active site 318167002839 DNA polymerase IV; Validated; Region: PRK02406 318167002840 DNA binding site [nucleotide binding] 318167002841 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 318167002842 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 318167002843 metal binding site [ion binding]; metal-binding site 318167002844 dimer interface [polypeptide binding]; other site 318167002845 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 318167002846 interface (dimer of trimers) [polypeptide binding]; other site 318167002847 Substrate-binding/catalytic site; other site 318167002848 Zn-binding sites [ion binding]; other site 318167002849 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 318167002850 gamma-glutamyl kinase; Provisional; Region: PRK05429 318167002851 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 318167002852 nucleotide binding site [chemical binding]; other site 318167002853 homotetrameric interface [polypeptide binding]; other site 318167002854 putative phosphate binding site [ion binding]; other site 318167002855 putative allosteric binding site; other site 318167002856 PUA domain; Region: PUA; cl00607 318167002857 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 318167002858 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 318167002859 putative catalytic cysteine [active] 318167002860 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 318167002861 chaperone protein DnaJ; Provisional; Region: PRK10767 318167002862 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 318167002863 HSP70 interaction site [polypeptide binding]; other site 318167002864 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 318167002865 substrate binding site [polypeptide binding]; other site 318167002866 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 318167002867 Zn binding sites [ion binding]; other site 318167002868 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 318167002869 dimer interface [polypeptide binding]; other site 318167002870 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 318167002871 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 318167002872 ATP binding site [chemical binding]; other site 318167002873 Mg++ binding site [ion binding]; other site 318167002874 motif III; other site 318167002875 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 318167002876 nucleotide binding region [chemical binding]; other site 318167002877 ATP-binding site [chemical binding]; other site 318167002878 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 318167002879 Peptidase family M48; Region: Peptidase_M48; cl12018 318167002880 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 318167002881 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 318167002882 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 318167002883 dihydrodipicolinate reductase; Provisional; Region: PRK00048 318167002884 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167002885 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 318167002886 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 318167002887 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 318167002888 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 318167002889 catalytic site [active] 318167002890 subunit interface [polypeptide binding]; other site 318167002891 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 318167002892 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 318167002893 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318167002894 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 318167002895 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 318167002896 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318167002897 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 318167002898 IMP binding site; other site 318167002899 dimer interface [polypeptide binding]; other site 318167002900 interdomain contacts; other site 318167002901 partial ornithine binding site; other site 318167002902 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 318167002903 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 318167002904 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 318167002905 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK12933 318167002906 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 318167002907 Protein export membrane protein; Region: SecD_SecF; cl14618 318167002908 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13021 318167002909 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 318167002910 Protein export membrane protein; Region: SecD_SecF; cl14618 318167002911 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 318167002912 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 318167002913 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 318167002914 S-adenosylmethionine binding site [chemical binding]; other site 318167002915 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 318167002916 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 318167002917 Walker A motif; other site 318167002918 ATP binding site [chemical binding]; other site 318167002919 Walker B motif; other site 318167002920 arginine finger; other site 318167002921 Peptidase family M41; Region: Peptidase_M41; pfam01434 318167002922 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 318167002923 dihydropteroate synthase; Region: DHPS; TIGR01496 318167002924 substrate binding pocket [chemical binding]; other site 318167002925 dimer interface [polypeptide binding]; other site 318167002926 inhibitor binding site; inhibition site 318167002927 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 318167002928 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 318167002929 active site 318167002930 substrate binding site [chemical binding]; other site 318167002931 metal binding site [ion binding]; metal-binding site 318167002932 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 318167002933 substrate binding site [chemical binding]; other site 318167002934 dimer interface [polypeptide binding]; other site 318167002935 catalytic triad [active] 318167002936 Preprotein translocase SecG subunit; Region: SecG; cl09123 318167002937 ribosome maturation protein RimP; Reviewed; Region: PRK00092 318167002938 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 318167002939 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 318167002940 Sm1 motif; other site 318167002941 D1 - D2 interaction site; other site 318167002942 D3 - B interaction site; other site 318167002943 Hfq - Hfq interaction site; other site 318167002944 RNA binding pocket [nucleotide binding]; other site 318167002945 Sm2 motif; other site 318167002946 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 318167002947 NusA N-terminal domain; Region: NusA_N; pfam08529 318167002948 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 318167002949 RNA binding site [nucleotide binding]; other site 318167002950 homodimer interface [polypeptide binding]; other site 318167002951 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 318167002952 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 318167002953 G-X-X-G motif; other site 318167002954 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 318167002955 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 318167002956 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 318167002957 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 318167002958 translation initiation factor IF-2; Region: IF-2; TIGR00487 318167002959 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 318167002960 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 318167002961 G1 box; other site 318167002962 putative GEF interaction site [polypeptide binding]; other site 318167002963 GTP/Mg2+ binding site [chemical binding]; other site 318167002964 Switch I region; other site 318167002965 G2 box; other site 318167002966 G3 box; other site 318167002967 Switch II region; other site 318167002968 G4 box; other site 318167002969 G5 box; other site 318167002970 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 318167002971 Translation-initiation factor 2; Region: IF-2; pfam11987 318167002972 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 318167002973 Ribosome-binding factor A; Region: RBFA; cl00542 318167002974 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 318167002975 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 318167002976 RNA binding site [nucleotide binding]; other site 318167002977 active site 318167002978 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 318167002979 16S/18S rRNA binding site [nucleotide binding]; other site 318167002980 S13e-L30e interaction site [polypeptide binding]; other site 318167002981 25S rRNA binding site [nucleotide binding]; other site 318167002982 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167002983 metal binding site [ion binding]; metal-binding site 318167002984 active site 318167002985 I-site; other site 318167002986 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 318167002987 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 318167002988 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 318167002989 RNase E interface [polypeptide binding]; other site 318167002990 trimer interface [polypeptide binding]; other site 318167002991 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 318167002992 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 318167002993 RNase E interface [polypeptide binding]; other site 318167002994 trimer interface [polypeptide binding]; other site 318167002995 active site 318167002996 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 318167002997 putative nucleic acid binding region [nucleotide binding]; other site 318167002998 G-X-X-G motif; other site 318167002999 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 318167003000 RNA binding site [nucleotide binding]; other site 318167003001 domain interface; other site 318167003002 lipoprotein NlpI; Provisional; Region: PRK11189 318167003003 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 318167003004 binding surface 318167003005 TPR motif; other site 318167003006 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 318167003007 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 318167003008 G1 box; other site 318167003009 putative GEF interaction site [polypeptide binding]; other site 318167003010 GTP/Mg2+ binding site [chemical binding]; other site 318167003011 Switch I region; other site 318167003012 G2 box; other site 318167003013 G3 box; other site 318167003014 Switch II region; other site 318167003015 G4 box; other site 318167003016 G5 box; other site 318167003017 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 318167003018 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 318167003019 active site 318167003020 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 318167003021 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 318167003022 Nucleoside recognition; Region: Gate; cl00486 318167003023 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 318167003024 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 318167003025 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 318167003026 intersubunit interface [polypeptide binding]; other site 318167003027 active site 318167003028 catalytic residue [active] 318167003029 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 318167003030 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 318167003031 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 318167003032 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 318167003033 Sulfatase; Region: Sulfatase; cl10460 318167003034 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 318167003035 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 318167003036 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 318167003037 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 318167003038 phosphoserine phosphatase SerB; Region: serB; TIGR00338 318167003039 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 318167003040 motif II; other site 318167003041 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318167003042 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 318167003043 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167003044 PilZ domain; Region: PilZ; cl01260 318167003045 PilZ domain; Region: PilZ; cl01260 318167003046 DNA repair protein RadA; Provisional; Region: PRK11823 318167003047 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167003048 Walker A motif; other site 318167003049 ATP binding site [chemical binding]; other site 318167003050 Walker B motif; other site 318167003051 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 318167003052 PilZ domain; Region: PilZ; cl01260 318167003053 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 318167003054 Peptidase family U32; Region: Peptidase_U32; cl03113 318167003055 Peptidase family U32; Region: Peptidase_U32; cl03113 318167003056 SCP-2 sterol transfer family; Region: SCP2; cl01225 318167003057 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 318167003058 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 318167003059 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 318167003060 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 318167003061 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 318167003062 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 318167003063 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 318167003064 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 318167003065 PAS domain S-box; Region: sensory_box; TIGR00229 318167003066 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 318167003067 PAS domain S-box; Region: sensory_box; TIGR00229 318167003068 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 318167003069 putative active site [active] 318167003070 heme pocket [chemical binding]; other site 318167003071 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 318167003072 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 318167003073 putative active site [active] 318167003074 heme pocket [chemical binding]; other site 318167003075 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 318167003076 dimer interface [polypeptide binding]; other site 318167003077 phosphorylation site [posttranslational modification] 318167003078 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 318167003079 ATP binding site [chemical binding]; other site 318167003080 Mg2+ binding site [ion binding]; other site 318167003081 G-X-G motif; other site 318167003082 Response regulator receiver domain; Region: Response_reg; pfam00072 318167003083 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167003084 active site 318167003085 phosphorylation site [posttranslational modification] 318167003086 intermolecular recognition site; other site 318167003087 dimerization interface [polypeptide binding]; other site 318167003088 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318167003089 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167003090 active site 318167003091 phosphorylation site [posttranslational modification] 318167003092 intermolecular recognition site; other site 318167003093 dimerization interface [polypeptide binding]; other site 318167003094 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 318167003095 Walker A motif; other site 318167003096 ATP binding site [chemical binding]; other site 318167003097 Walker B motif; other site 318167003098 arginine finger; other site 318167003099 Helix-turn-helix domains; Region: HTH; cl00088 318167003100 ferredoxin; Validated; Region: PRK07118 318167003101 putative protease; Provisional; Region: PRK15452 318167003102 Peptidase family U32; Region: Peptidase_U32; cl03113 318167003103 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 318167003104 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167003105 metal binding site [ion binding]; metal-binding site 318167003106 active site 318167003107 I-site; other site 318167003108 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 318167003109 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 318167003110 active site 318167003111 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318167003112 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 318167003113 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 318167003114 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167003115 metal binding site [ion binding]; metal-binding site 318167003116 active site 318167003117 I-site; other site 318167003118 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 318167003119 LabA_like proteins; Region: LabA_like/DUF88; cl10034 318167003120 putative metal binding site [ion binding]; other site 318167003121 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318167003122 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167003123 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 318167003124 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 318167003125 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 318167003126 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 318167003127 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167003128 Walker A/P-loop; other site 318167003129 ATP binding site [chemical binding]; other site 318167003130 Q-loop/lid; other site 318167003131 ABC transporter signature motif; other site 318167003132 Walker B; other site 318167003133 D-loop; other site 318167003134 H-loop/switch region; other site 318167003135 ABC transporter; Region: ABC_tran_2; pfam12848 318167003136 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 318167003137 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 318167003138 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 318167003139 dimer interface [polypeptide binding]; other site 318167003140 active site 318167003141 glycine-pyridoxal phosphate binding site [chemical binding]; other site 318167003142 folate binding site [chemical binding]; other site 318167003143 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 318167003144 ATP cone domain; Region: ATP-cone; pfam03477 318167003145 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 318167003146 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 318167003147 catalytic motif [active] 318167003148 Zn binding site [ion binding]; other site 318167003149 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 318167003150 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 318167003151 Lumazine binding domain; Region: Lum_binding; pfam00677 318167003152 Lumazine binding domain; Region: Lum_binding; pfam00677 318167003153 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 318167003154 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 318167003155 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 318167003156 dimerization interface [polypeptide binding]; other site 318167003157 active site 318167003158 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 318167003159 homopentamer interface [polypeptide binding]; other site 318167003160 active site 318167003161 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 318167003162 putative RNA binding site [nucleotide binding]; other site 318167003163 thiamine monophosphate kinase; Provisional; Region: PRK05731 318167003164 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 318167003165 ATP binding site [chemical binding]; other site 318167003166 dimerization interface [polypeptide binding]; other site 318167003167 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 318167003168 tetramer interfaces [polypeptide binding]; other site 318167003169 binuclear metal-binding site [ion binding]; other site 318167003170 recombination and repair protein; Provisional; Region: PRK10869 318167003171 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 318167003172 Walker A/P-loop; other site 318167003173 ATP binding site [chemical binding]; other site 318167003174 Q-loop/lid; other site 318167003175 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 318167003176 ABC transporter signature motif; other site 318167003177 Walker B; other site 318167003178 D-loop; other site 318167003179 H-loop/switch region; other site 318167003180 Membrane transport protein; Region: Mem_trans; cl09117 318167003181 Protein of unknown function (DUF3319); Region: DUF3319; pfam11782 318167003182 Protein of unknown function (DUF416); Region: DUF416; cl01166 318167003183 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 318167003184 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 318167003185 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 318167003186 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 318167003187 dimer interface [polypeptide binding]; other site 318167003188 phosphorylation site [posttranslational modification] 318167003189 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 318167003190 ATP binding site [chemical binding]; other site 318167003191 Mg2+ binding site [ion binding]; other site 318167003192 G-X-G motif; other site 318167003193 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167003194 active site 318167003195 phosphorylation site [posttranslational modification] 318167003196 intermolecular recognition site; other site 318167003197 dimerization interface [polypeptide binding]; other site 318167003198 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 318167003199 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 318167003200 TRAM domain; Region: TRAM; cl01282 318167003201 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 318167003202 S-adenosylmethionine binding site [chemical binding]; other site 318167003203 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 318167003204 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 318167003205 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 318167003206 synthetase active site [active] 318167003207 NTP binding site [chemical binding]; other site 318167003208 metal binding site [ion binding]; metal-binding site 318167003209 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 318167003210 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 318167003211 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 318167003212 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 318167003213 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 318167003214 CTP synthetase; Validated; Region: pyrG; PRK05380 318167003215 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 318167003216 Catalytic site [active] 318167003217 active site 318167003218 UTP binding site [chemical binding]; other site 318167003219 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 318167003220 active site 318167003221 putative oxyanion hole; other site 318167003222 catalytic triad [active] 318167003223 enolase; Provisional; Region: eno; PRK00077 318167003224 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 318167003225 dimer interface [polypeptide binding]; other site 318167003226 metal binding site [ion binding]; metal-binding site 318167003227 substrate binding pocket [chemical binding]; other site 318167003228 Septum formation initiator; Region: DivIC; cl11433 318167003229 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 318167003230 substrate binding site; other site 318167003231 dimer interface; other site 318167003232 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 318167003233 homotrimer interaction site [polypeptide binding]; other site 318167003234 zinc binding site [ion binding]; other site 318167003235 CDP-binding sites; other site 318167003236 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 318167003237 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 318167003238 Permutation of conserved domain; other site 318167003239 active site 318167003240 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 318167003241 Survival protein SurE; Region: SurE; cl00448 318167003242 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167003243 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 318167003244 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 318167003245 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 318167003246 putative peptidoglycan binding site; other site 318167003247 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 318167003248 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 318167003249 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167003250 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 318167003251 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 318167003252 DNA binding residues [nucleotide binding] 318167003253 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 318167003254 MutS domain I; Region: MutS_I; pfam01624 318167003255 MutS domain II; Region: MutS_II; pfam05188 318167003256 MutS family domain IV; Region: MutS_IV; pfam05190 318167003257 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 318167003258 Walker A/P-loop; other site 318167003259 ATP binding site [chemical binding]; other site 318167003260 Q-loop/lid; other site 318167003261 ABC transporter signature motif; other site 318167003262 Walker B; other site 318167003263 D-loop; other site 318167003264 H-loop/switch region; other site 318167003265 recombinase A; Provisional; Region: recA; PRK09354 318167003266 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 318167003267 hexamer interface [polypeptide binding]; other site 318167003268 Walker A motif; other site 318167003269 ATP binding site [chemical binding]; other site 318167003270 Walker B motif; other site 318167003271 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 318167003272 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 318167003273 motif 1; other site 318167003274 active site 318167003275 motif 2; other site 318167003276 motif 3; other site 318167003277 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 318167003278 DHHA1 domain; Region: DHHA1; pfam02272 318167003279 Global regulator protein family; Region: CsrA; cl00670 318167003280 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 318167003281 oxaloacetate decarboxylase; Provisional; Region: PRK14040 318167003282 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 318167003283 active site 318167003284 catalytic residues [active] 318167003285 metal binding site [ion binding]; metal-binding site 318167003286 homodimer binding site [polypeptide binding]; other site 318167003287 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 318167003288 carboxyltransferase (CT) interaction site; other site 318167003289 biotinylation site [posttranslational modification]; other site 318167003290 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 318167003291 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 318167003292 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 318167003293 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 318167003294 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 318167003295 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 318167003296 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 318167003297 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 318167003298 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 318167003299 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 318167003300 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl15791 318167003301 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 318167003302 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318167003303 catalytic residue [active] 318167003304 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 318167003305 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318167003306 AIR carboxylase; Region: AIRC; cl00310 318167003307 von Willebrand factor; Region: vWF_A; pfam12450 318167003308 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 318167003309 VWA subgroup: 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_subgroup; cd01465 318167003310 metal ion-dependent adhesion site (MIDAS); other site 318167003311 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 318167003312 RNA polymerase sigma factor; Provisional; Region: PRK12513 318167003313 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167003314 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 318167003315 DNA binding residues [nucleotide binding] 318167003316 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 318167003317 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318167003318 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 318167003319 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 318167003320 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 318167003321 protein binding site [polypeptide binding]; other site 318167003322 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 318167003323 Domain interface; other site 318167003324 Peptide binding site; other site 318167003325 Active site tetrad [active] 318167003326 OsmC-like protein; Region: OsmC; cl00767 318167003327 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 318167003328 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 318167003329 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 318167003330 catalytic residues [active] 318167003331 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 318167003332 30S subunit binding site; other site 318167003333 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167003334 metal binding site [ion binding]; metal-binding site 318167003335 active site 318167003336 I-site; other site 318167003337 Transcriptional regulator; Region: Transcrip_reg; cl00361 318167003338 Protein of unknown function (DUF2375); Region: DUF2375; cl09781 318167003339 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167003340 Helix-turn-helix domains; Region: HTH; cl00088 318167003341 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 318167003342 FMN binding site [chemical binding]; other site 318167003343 active site 318167003344 substrate binding site [chemical binding]; other site 318167003345 catalytic residue [active] 318167003346 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 318167003347 Leucine-rich repeats, typical (most populated) subfamily; Region: LRR_TYP; cl15310 318167003348 Protein kinase; unclassified specificity; Region: STYKc; smart00221 318167003349 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167003350 active site 318167003351 ATP binding site [chemical binding]; other site 318167003352 substrate binding site [chemical binding]; other site 318167003353 activation loop (A-loop); other site 318167003354 hypothetical protein; Provisional; Region: PRK10220 318167003355 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 318167003356 PhnA protein; Region: PhnA; pfam03831 318167003357 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 318167003358 Sel1 repeat; Region: Sel1; cl02723 318167003359 Sel1 repeat; Region: Sel1; cl02723 318167003360 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 318167003361 SmpB-tmRNA interface; other site 318167003362 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 318167003363 putative coenzyme Q binding site [chemical binding]; other site 318167003364 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 318167003365 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 318167003366 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 318167003367 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 318167003368 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 318167003369 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 318167003370 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167003371 metal binding site [ion binding]; metal-binding site 318167003372 active site 318167003373 I-site; other site 318167003374 malate synthase A; Region: malate_syn_A; TIGR01344 318167003375 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 318167003376 active site 318167003377 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 318167003378 tetramer interface [polypeptide binding]; other site 318167003379 active site 318167003380 Mg2+/Mn2+ binding site [ion binding]; other site 318167003381 HDOD domain; Region: HDOD; pfam08668 318167003382 GAF domain; Region: GAF_2; pfam13185 318167003383 GAF domain; Region: GAF; cl15785 318167003384 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 318167003385 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 318167003386 ParA-like protein; Provisional; Region: PHA02518 318167003387 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 318167003388 P-loop; other site 318167003389 Magnesium ion binding site [ion binding]; other site 318167003390 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 318167003391 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 318167003392 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167003393 Coenzyme A binding pocket [chemical binding]; other site 318167003394 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 318167003395 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 318167003396 active site 318167003397 metal binding site [ion binding]; metal-binding site 318167003398 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 318167003399 Domain of unknown function DUF21; Region: DUF21; pfam01595 318167003400 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 318167003401 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 318167003402 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 318167003403 FeS/SAM binding site; other site 318167003404 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 318167003405 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 318167003406 binding surface 318167003407 TPR motif; other site 318167003408 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 318167003409 binding surface 318167003410 TPR motif; other site 318167003411 cytoskeletal protein RodZ; Provisional; Region: PRK10856 318167003412 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 318167003413 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 318167003414 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 318167003415 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 318167003416 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 318167003417 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 318167003418 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 318167003419 dimer interface [polypeptide binding]; other site 318167003420 motif 1; other site 318167003421 active site 318167003422 motif 2; other site 318167003423 motif 3; other site 318167003424 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 318167003425 anticodon binding site; other site 318167003426 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 318167003427 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 318167003428 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 318167003429 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 318167003430 Trp docking motif [polypeptide binding]; other site 318167003431 active site 318167003432 GTP-binding protein Der; Reviewed; Region: PRK00093 318167003433 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 318167003434 G1 box; other site 318167003435 GTP/Mg2+ binding site [chemical binding]; other site 318167003436 Switch I region; other site 318167003437 G2 box; other site 318167003438 Switch II region; other site 318167003439 G3 box; other site 318167003440 G4 box; other site 318167003441 G5 box; other site 318167003442 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 318167003443 G1 box; other site 318167003444 GTP/Mg2+ binding site [chemical binding]; other site 318167003445 Switch I region; other site 318167003446 G2 box; other site 318167003447 G3 box; other site 318167003448 Switch II region; other site 318167003449 G4 box; other site 318167003450 G5 box; other site 318167003451 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 318167003452 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 318167003453 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 318167003454 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 318167003455 catalytic residues [active] 318167003456 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 318167003457 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 318167003458 ApbE family; Region: ApbE; cl00643 318167003459 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 318167003460 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167003461 active site 318167003462 phosphorylation site [posttranslational modification] 318167003463 intermolecular recognition site; other site 318167003464 dimerization interface [polypeptide binding]; other site 318167003465 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 318167003466 DNA binding site [nucleotide binding] 318167003467 sensor protein QseC; Provisional; Region: PRK10337 318167003468 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 318167003469 dimer interface [polypeptide binding]; other site 318167003470 phosphorylation site [posttranslational modification] 318167003471 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 318167003472 ATP binding site [chemical binding]; other site 318167003473 Mg2+ binding site [ion binding]; other site 318167003474 G-X-G motif; other site 318167003475 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 318167003476 transcription termination factor Rho; Provisional; Region: PRK12678 318167003477 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 318167003478 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 318167003479 ATP binding site [chemical binding]; other site 318167003480 Mg2+ binding site [ion binding]; other site 318167003481 G-X-G motif; other site 318167003482 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318167003483 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167003484 active site 318167003485 phosphorylation site [posttranslational modification] 318167003486 intermolecular recognition site; other site 318167003487 dimerization interface [polypeptide binding]; other site 318167003488 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 318167003489 DNA binding site [nucleotide binding] 318167003490 Predicted membrane protein [Function unknown]; Region: COG3212 318167003491 Rhombo-CTERM domain; Region: rhombo_CTERM; TIGR03501 318167003492 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167003493 ligand binding site [chemical binding]; other site 318167003494 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 318167003495 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 318167003496 generic binding surface II; other site 318167003497 generic binding surface I; other site 318167003498 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 318167003499 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 318167003500 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 318167003501 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 318167003502 active site 318167003503 GMP synthase; Reviewed; Region: guaA; PRK00074 318167003504 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 318167003505 AMP/PPi binding site [chemical binding]; other site 318167003506 candidate oxyanion hole; other site 318167003507 catalytic triad [active] 318167003508 potential glutamine specificity residues [chemical binding]; other site 318167003509 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 318167003510 ATP Binding subdomain [chemical binding]; other site 318167003511 Ligand Binding sites [chemical binding]; other site 318167003512 Dimerization subdomain; other site 318167003513 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 318167003514 nucleoside/Zn binding site; other site 318167003515 dimer interface [polypeptide binding]; other site 318167003516 catalytic motif [active] 318167003517 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 318167003518 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 318167003519 substrate binding pocket [chemical binding]; other site 318167003520 membrane-bound complex binding site; other site 318167003521 hinge residues; other site 318167003522 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 318167003523 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318167003524 catalytic residue [active] 318167003525 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 318167003526 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 318167003527 dimerization interface [polypeptide binding]; other site 318167003528 ATP binding site [chemical binding]; other site 318167003529 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 318167003530 dimerization interface [polypeptide binding]; other site 318167003531 ATP binding site [chemical binding]; other site 318167003532 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 318167003533 putative active site [active] 318167003534 catalytic triad [active] 318167003535 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 318167003536 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 318167003537 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 318167003538 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 318167003539 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 318167003540 Protein required for attachment to host cells; Region: Host_attach; cl02398 318167003541 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 318167003542 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167003543 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167003544 dimer interface [polypeptide binding]; other site 318167003545 putative CheW interface [polypeptide binding]; other site 318167003546 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318167003547 Protein export membrane protein; Region: SecD_SecF; cl14618 318167003548 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167003549 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 318167003550 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 318167003551 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167003552 Helix-turn-helix domains; Region: HTH; cl00088 318167003553 LPP20 lipoprotein; Region: LPP20; cl15824 318167003554 Protein of unknown function (DUF2947); Region: DUF2947; pfam11163 318167003555 FlgN protein; Region: FlgN; cl09176 318167003556 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 318167003557 SAF domain; Region: SAF; cl00555 318167003558 SAF-like; Region: SAF_2; pfam13144 318167003559 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 318167003560 Response regulator receiver domain; Region: Response_reg; pfam00072 318167003561 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167003562 active site 318167003563 phosphorylation site [posttranslational modification] 318167003564 intermolecular recognition site; other site 318167003565 dimerization interface [polypeptide binding]; other site 318167003566 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 318167003567 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 318167003568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167003569 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12625 318167003570 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 318167003571 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 318167003572 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 318167003573 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 318167003574 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 318167003575 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12634 318167003576 FlgD Ig-like domain; Region: FlgD_ig; cl15790 318167003577 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 318167003578 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 318167003579 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 318167003580 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 318167003581 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 318167003582 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 318167003583 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 318167003584 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 318167003585 Flagellar L-ring protein; Region: FlgH; cl00905 318167003586 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 318167003587 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 318167003588 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 318167003589 Rod binding protein; Region: Rod-binding; cl01626 318167003590 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 318167003591 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 318167003592 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 318167003593 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 318167003594 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 318167003595 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 318167003596 flagellin; Reviewed; Region: PRK08869 318167003597 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 318167003598 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 318167003599 flagellin; Reviewed; Region: PRK08869 318167003600 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 318167003601 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 318167003602 FlaG protein; Region: FlaG; cl00591 318167003603 flagellar capping protein; Reviewed; Region: fliD; PRK08032 318167003604 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 318167003605 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 318167003606 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 318167003607 Flagellar protein FliS; Region: FliS; cl00654 318167003608 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318167003609 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 318167003610 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 318167003611 Walker A motif; other site 318167003612 ATP binding site [chemical binding]; other site 318167003613 Walker B motif; other site 318167003614 arginine finger; other site 318167003615 Helix-turn-helix domains; Region: HTH; cl00088 318167003616 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 318167003617 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 318167003618 putative active site [active] 318167003619 heme pocket [chemical binding]; other site 318167003620 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 318167003621 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 318167003622 ATP binding site [chemical binding]; other site 318167003623 Mg2+ binding site [ion binding]; other site 318167003624 G-X-G motif; other site 318167003625 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318167003626 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167003627 active site 318167003628 phosphorylation site [posttranslational modification] 318167003629 intermolecular recognition site; other site 318167003630 dimerization interface [polypeptide binding]; other site 318167003631 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 318167003632 Walker A motif; other site 318167003633 ATP binding site [chemical binding]; other site 318167003634 Walker B motif; other site 318167003635 arginine finger; other site 318167003636 Helix-turn-helix domains; Region: HTH; cl00088 318167003637 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 318167003638 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 318167003639 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 318167003640 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 318167003641 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 318167003642 MgtE intracellular N domain; Region: MgtE_N; cl15244 318167003643 FliG C-terminal domain; Region: FliG_C; pfam01706 318167003644 flagellar assembly protein H; Validated; Region: fliH; PRK05687 318167003645 Flagellar assembly protein FliH; Region: FliH; pfam02108 318167003646 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 318167003647 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 318167003648 Walker A motif/ATP binding site; other site 318167003649 Walker B motif; other site 318167003650 flagellar biosynthesis chaperone; Validated; Region: fliJ; cl09161 318167003651 Flagellar FliJ protein; Region: FliJ; pfam02050 318167003652 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 318167003653 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 318167003654 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 318167003655 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 318167003656 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 318167003657 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 318167003658 FliP family; Region: FliP; cl00593 318167003659 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 318167003660 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 318167003661 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 318167003662 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 318167003663 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 318167003664 FHIPEP family; Region: FHIPEP; pfam00771 318167003665 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 318167003666 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167003667 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167003668 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167003669 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 318167003670 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 318167003671 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 318167003672 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167003673 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 318167003674 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 318167003675 DNA binding residues [nucleotide binding] 318167003676 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 318167003677 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167003678 active site 318167003679 phosphorylation site [posttranslational modification] 318167003680 intermolecular recognition site; other site 318167003681 dimerization interface [polypeptide binding]; other site 318167003682 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 318167003683 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 318167003684 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 318167003685 putative binding surface; other site 318167003686 active site 318167003687 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 318167003688 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 318167003689 ATP binding site [chemical binding]; other site 318167003690 Mg2+ binding site [ion binding]; other site 318167003691 G-X-G motif; other site 318167003692 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 318167003693 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 318167003694 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167003695 active site 318167003696 phosphorylation site [posttranslational modification] 318167003697 intermolecular recognition site; other site 318167003698 dimerization interface [polypeptide binding]; other site 318167003699 CheB methylesterase; Region: CheB_methylest; pfam01339 318167003700 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 318167003701 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 318167003702 P loop; other site 318167003703 Nucleotide binding site [chemical binding]; other site 318167003704 DTAP/Switch II; other site 318167003705 Switch I; other site 318167003706 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 318167003707 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 318167003708 putative CheA interaction surface; other site 318167003709 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 318167003710 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 318167003711 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 318167003712 S-adenosylmethionine binding site [chemical binding]; other site 318167003713 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 318167003714 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 318167003715 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 318167003716 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318167003717 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 318167003718 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 318167003719 putative active site [active] 318167003720 Zn binding site [ion binding]; other site 318167003721 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 318167003722 PAS fold; Region: PAS_3; pfam08447 318167003723 putative active site [active] 318167003724 heme pocket [chemical binding]; other site 318167003725 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167003726 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167003727 dimer interface [polypeptide binding]; other site 318167003728 putative CheW interface [polypeptide binding]; other site 318167003729 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 318167003730 dimerization interface [polypeptide binding]; other site 318167003731 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167003732 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167003733 dimer interface [polypeptide binding]; other site 318167003734 putative CheW interface [polypeptide binding]; other site 318167003735 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 318167003736 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 318167003737 FMN binding site [chemical binding]; other site 318167003738 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 318167003739 substrate binding site [chemical binding]; other site 318167003740 putative catalytic residue [active] 318167003741 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 318167003742 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 318167003743 active site 318167003744 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 318167003745 active site 318167003746 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 318167003747 dimer interface [polypeptide binding]; other site 318167003748 active site 2 [active] 318167003749 active site 1 [active] 318167003750 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 318167003751 active site 2 [active] 318167003752 active site 1 [active] 318167003753 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 318167003754 active site 1 [active] 318167003755 dimer interface [polypeptide binding]; other site 318167003756 active site 2 [active] 318167003757 Acyl transferase domain; Region: Acyl_transf_1; cl08282 318167003758 polyketide-type polyunsaturated fatty acid synthase PfaA; Region: omega_3_PfaA; TIGR02813 318167003759 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 318167003760 active site 318167003761 Acyl transferase domain; Region: Acyl_transf_1; cl08282 318167003762 Phosphopantetheine attachment site; Region: PP-binding; cl09936 318167003763 Phosphopantetheine attachment site; Region: PP-binding; cl09936 318167003764 Phosphopantetheine attachment site; Region: PP-binding; cl09936 318167003765 Phosphopantetheine attachment site; Region: PP-binding; cl09936 318167003766 Phosphopantetheine attachment site; Region: PP-binding; cl09936 318167003767 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 318167003768 putative NADP binding site [chemical binding]; other site 318167003769 active site 318167003770 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 318167003771 Helix-turn-helix domains; Region: HTH; cl00088 318167003772 Winged helix-turn helix; Region: HTH_29; pfam13551 318167003773 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 318167003774 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 318167003775 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 318167003776 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 318167003777 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 318167003778 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 318167003779 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 318167003780 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 318167003781 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 318167003782 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 318167003783 catalytic residues [active] 318167003784 Bacterial SH3 domain; Region: SH3_3; cl02551 318167003785 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 318167003786 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 318167003787 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 318167003788 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 318167003789 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 318167003790 ApbE family; Region: ApbE; cl00643 318167003791 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 318167003792 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 318167003793 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 318167003794 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318167003795 SCP-2 sterol transfer family; Region: SCP2; cl01225 318167003796 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 318167003797 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 318167003798 putative substrate binding pocket [chemical binding]; other site 318167003799 putative dimerization interface [polypeptide binding]; other site 318167003800 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 318167003801 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 318167003802 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 318167003803 Syd protein (SUKH-2); Region: Syd; cl06405 318167003804 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167003805 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167003806 Family description; Region: UvrD_C_2; cl15862 318167003807 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; cl02380 318167003808 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 318167003809 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 318167003810 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318167003811 Protein of unknown function (DUF962); Region: DUF962; cl01879 318167003812 putative oxidoreductase; Provisional; Region: PRK11579 318167003813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167003814 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 318167003815 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 318167003816 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 318167003817 tRNA pseudouridine synthase C; Region: DUF446; cl01187 318167003818 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 318167003819 probable active site [active] 318167003820 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 318167003821 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 318167003822 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 318167003823 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cl00164 318167003824 active site turn [active] 318167003825 phosphorylation site [posttranslational modification] 318167003826 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 318167003827 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 318167003828 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 318167003829 putative active site [active] 318167003830 putative substrate binding site [chemical binding]; other site 318167003831 putative cosubstrate binding site; other site 318167003832 catalytic site [active] 318167003833 GAF domain; Region: GAF_2; pfam13185 318167003834 GAF domain; Region: GAF; cl15785 318167003835 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318167003836 Zn2+ binding site [ion binding]; other site 318167003837 Mg2+ binding site [ion binding]; other site 318167003838 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 318167003839 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 318167003840 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 318167003841 trimer interface [polypeptide binding]; other site 318167003842 active site 318167003843 substrate binding site [chemical binding]; other site 318167003844 CoA binding site [chemical binding]; other site 318167003845 PII uridylyl-transferase; Provisional; Region: PRK05007 318167003846 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 318167003847 metal binding triad; other site 318167003848 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 318167003849 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 318167003850 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 318167003851 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 318167003852 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 318167003853 active site 318167003854 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 318167003855 rRNA interaction site [nucleotide binding]; other site 318167003856 S8 interaction site; other site 318167003857 putative laminin-1 binding site; other site 318167003858 elongation factor Ts; Provisional; Region: tsf; PRK09377 318167003859 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 318167003860 Elongation factor TS; Region: EF_TS; pfam00889 318167003861 Elongation factor TS; Region: EF_TS; pfam00889 318167003862 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 318167003863 putative nucleotide binding site [chemical binding]; other site 318167003864 uridine monophosphate binding site [chemical binding]; other site 318167003865 homohexameric interface [polypeptide binding]; other site 318167003866 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 318167003867 hinge region; other site 318167003868 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 318167003869 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 318167003870 catalytic residue [active] 318167003871 putative FPP diphosphate binding site; other site 318167003872 putative FPP binding hydrophobic cleft; other site 318167003873 dimer interface [polypeptide binding]; other site 318167003874 putative IPP diphosphate binding site; other site 318167003875 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 318167003876 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 318167003877 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 318167003878 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 318167003879 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 318167003880 zinc metallopeptidase RseP; Provisional; Region: PRK10779 318167003881 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 318167003882 active site 318167003883 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 318167003884 protein binding site [polypeptide binding]; other site 318167003885 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 318167003886 protein binding site [polypeptide binding]; other site 318167003887 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 318167003888 putative substrate binding region [chemical binding]; other site 318167003889 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 318167003890 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 318167003891 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 318167003892 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 318167003893 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 318167003894 Surface antigen; Region: Bac_surface_Ag; cl03097 318167003895 periplasmic chaperone; Provisional; Region: PRK10780 318167003896 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 318167003897 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 318167003898 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 318167003899 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 318167003900 trimer interface [polypeptide binding]; other site 318167003901 active site 318167003902 UDP-GlcNAc binding site [chemical binding]; other site 318167003903 lipid binding site [chemical binding]; lipid-binding site 318167003904 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 318167003905 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 318167003906 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 318167003907 active site 318167003908 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 318167003909 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 318167003910 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 318167003911 RNA/DNA hybrid binding site [nucleotide binding]; other site 318167003912 active site 318167003913 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 318167003914 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 318167003915 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 318167003916 generic binding surface II; other site 318167003917 generic binding surface I; other site 318167003918 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 318167003919 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 318167003920 Ligand Binding Site [chemical binding]; other site 318167003921 TilS substrate binding domain; Region: TilS; pfam09179 318167003922 B3/4 domain; Region: B3_4; cl11458 318167003923 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 318167003924 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 318167003925 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 318167003926 PA/protease or protease-like domain interface [polypeptide binding]; other site 318167003927 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 318167003928 metal binding site [ion binding]; metal-binding site 318167003929 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 318167003930 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318167003931 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318167003932 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318167003933 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 318167003934 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167003935 Coenzyme A binding pocket [chemical binding]; other site 318167003936 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 318167003937 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 318167003938 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 318167003939 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 318167003940 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318167003941 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167003942 metal binding site [ion binding]; metal-binding site 318167003943 active site 318167003944 I-site; other site 318167003945 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 318167003946 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 318167003947 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 318167003948 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167003949 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 318167003950 RNA polymerase sigma factor; Provisional; Region: PRK12514 318167003951 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167003952 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 318167003953 DNA binding residues [nucleotide binding] 318167003954 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 318167003955 Anti-sigma-K factor rskA; Region: RskA; pfam10099 318167003956 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 318167003957 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 318167003958 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 318167003959 TPR motif; other site 318167003960 binding surface 318167003961 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 318167003962 HupE / UreJ protein; Region: HupE_UreJ; cl01011 318167003963 Uncharacterized conserved protein [Function unknown]; Region: COG4715 318167003964 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 318167003965 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 318167003966 ATP binding site [chemical binding]; other site 318167003967 putative Mg++ binding site [ion binding]; other site 318167003968 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 318167003969 nucleotide binding region [chemical binding]; other site 318167003970 ATP-binding site [chemical binding]; other site 318167003971 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 318167003972 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 318167003973 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 318167003974 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 318167003975 Ligand binding site; other site 318167003976 DXD motif; other site 318167003977 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 318167003978 active site 318167003979 FMN binding site [chemical binding]; other site 318167003980 substrate binding site [chemical binding]; other site 318167003981 putative catalytic residue [active] 318167003982 LysE type translocator; Region: LysE; cl00565 318167003983 DTW domain; Region: DTW; cl01221 318167003984 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 318167003985 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 318167003986 PA14 domain; Region: PA14; cl08459 318167003987 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 318167003988 Fibronectin type III-like domain; Region: Fn3-like; cl15273 318167003989 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167003990 JmjC domain, hydroxylase; Region: JmjC; cl15814 318167003991 SapC; Region: SapC; pfam07277 318167003992 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167003993 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 318167003994 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 318167003995 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 318167003996 Transcriptional regulators [Transcription]; Region: PurR; COG1609 318167003997 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 318167003998 DNA binding site [nucleotide binding] 318167003999 domain linker motif; other site 318167004000 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 318167004001 dimerization interface (closed form) [polypeptide binding]; other site 318167004002 ligand binding site [chemical binding]; other site 318167004003 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 318167004004 putative symporter YagG; Provisional; Region: PRK09669 318167004005 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 318167004006 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 318167004007 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 318167004008 putative substrate translocation pore; other site 318167004009 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 318167004010 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 318167004011 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 318167004012 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 318167004013 active site 318167004014 catalytic residues [active] 318167004015 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 318167004016 active site 318167004017 fructokinase; Reviewed; Region: PRK09557 318167004018 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 318167004019 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 318167004020 putative active site [active] 318167004021 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 318167004022 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 318167004023 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 318167004024 ferredoxin-type protein; Provisional; Region: PRK10194 318167004025 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 318167004026 4Fe-4S binding domain; Region: Fer4; cl02805 318167004027 UDP-glucose 4-epimerase; Region: PLN02240 318167004028 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 318167004029 NAD binding site [chemical binding]; other site 318167004030 homodimer interface [polypeptide binding]; other site 318167004031 active site 318167004032 substrate binding site [chemical binding]; other site 318167004033 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 318167004034 cofactor binding site; other site 318167004035 metal binding site [ion binding]; metal-binding site 318167004036 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 318167004037 aromatic arch; other site 318167004038 DCoH dimer interaction site [polypeptide binding]; other site 318167004039 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 318167004040 DCoH tetramer interaction site [polypeptide binding]; other site 318167004041 substrate binding site [chemical binding]; other site 318167004042 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 318167004043 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 318167004044 putative aromatic amino acid binding site; other site 318167004045 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 318167004046 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 318167004047 Walker A motif; other site 318167004048 ATP binding site [chemical binding]; other site 318167004049 Walker B motif; other site 318167004050 arginine finger; other site 318167004051 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 318167004052 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 318167004053 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 318167004054 maleylacetoacetate isomerase; Region: maiA; TIGR01262 318167004055 C-terminal domain interface [polypeptide binding]; other site 318167004056 GSH binding site (G-site) [chemical binding]; other site 318167004057 putative dimer interface [polypeptide binding]; other site 318167004058 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 318167004059 dimer interface [polypeptide binding]; other site 318167004060 N-terminal domain interface [polypeptide binding]; other site 318167004061 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 318167004062 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 318167004063 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 318167004064 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 318167004065 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167004066 NAD(P) binding site [chemical binding]; other site 318167004067 active site 318167004068 homoserine O-succinyltransferase; Provisional; Region: PRK05368 318167004069 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 318167004070 proposed active site lysine [active] 318167004071 conserved cys residue [active] 318167004072 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167004073 metal binding site [ion binding]; metal-binding site 318167004074 active site 318167004075 I-site; other site 318167004076 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 318167004077 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 318167004078 dimer interface [polypeptide binding]; other site 318167004079 active site 318167004080 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 318167004081 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318167004082 tetrameric interface [polypeptide binding]; other site 318167004083 NAD binding site [chemical binding]; other site 318167004084 catalytic residues [active] 318167004085 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 318167004086 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318167004087 active site 318167004088 enoyl-CoA hydratase; Provisional; Region: PRK09076 318167004089 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 318167004090 substrate binding site [chemical binding]; other site 318167004091 oxyanion hole (OAH) forming residues; other site 318167004092 trimer interface [polypeptide binding]; other site 318167004093 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 318167004094 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 318167004095 substrate binding site [chemical binding]; other site 318167004096 oxyanion hole (OAH) forming residues; other site 318167004097 trimer interface [polypeptide binding]; other site 318167004098 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 318167004099 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167004100 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 318167004101 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318167004102 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167004103 NAD(P) binding site [chemical binding]; other site 318167004104 active site 318167004105 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 318167004106 EamA-like transporter family; Region: EamA; cl01037 318167004107 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 318167004108 putative active site [active] 318167004109 Zn binding site [ion binding]; other site 318167004110 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 318167004111 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167004112 Walker A/P-loop; other site 318167004113 ATP binding site [chemical binding]; other site 318167004114 Q-loop/lid; other site 318167004115 ABC transporter signature motif; other site 318167004116 Walker B; other site 318167004117 D-loop; other site 318167004118 H-loop/switch region; other site 318167004119 ABC transporter; Region: ABC_tran_2; pfam12848 318167004120 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 318167004121 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167004122 Nitrate and nitrite sensing; Region: NIT; pfam08376 318167004123 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 318167004124 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167004125 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167004126 dimer interface [polypeptide binding]; other site 318167004127 putative CheW interface [polypeptide binding]; other site 318167004128 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 318167004129 LysE type translocator; Region: LysE; cl00565 318167004130 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 318167004131 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 318167004132 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 318167004133 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 318167004134 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 318167004135 Utp8 family; Region: Utp8; pfam10395 318167004136 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 318167004137 conserved gate region; other site 318167004138 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 318167004139 ABC-ATPase subunit interface; other site 318167004140 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 318167004141 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 318167004142 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 318167004143 dimer interface [polypeptide binding]; other site 318167004144 conserved gate region; other site 318167004145 putative PBP binding loops; other site 318167004146 ABC-ATPase subunit interface; other site 318167004147 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 318167004148 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 318167004149 Walker A/P-loop; other site 318167004150 ATP binding site [chemical binding]; other site 318167004151 Q-loop/lid; other site 318167004152 ABC transporter signature motif; other site 318167004153 Walker B; other site 318167004154 D-loop; other site 318167004155 H-loop/switch region; other site 318167004156 transcriptional regulator PhoU; Provisional; Region: PRK11115 318167004157 PhoU domain; Region: PhoU; pfam01895 318167004158 PhoU domain; Region: PhoU; pfam01895 318167004159 Protein of unknown function (DUF502); Region: DUF502; cl01107 318167004160 hypothetical protein; Provisional; Region: PRK11295 318167004161 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 318167004162 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 318167004163 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 318167004164 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 318167004165 dimer interface [polypeptide binding]; other site 318167004166 active site 318167004167 CoA binding pocket [chemical binding]; other site 318167004168 haloalkane dehalogenase; Provisional; Region: PRK03592 318167004169 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 318167004170 peptide synthase; Provisional; Region: PRK09274 318167004171 AMP-binding enzyme; Region: AMP-binding; cl15778 318167004172 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167004173 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 318167004174 NAD(P) binding site [chemical binding]; other site 318167004175 active site 318167004176 methionine gamma-lyase; Provisional; Region: PRK06234 318167004177 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 318167004178 homodimer interface [polypeptide binding]; other site 318167004179 substrate-cofactor binding pocket; other site 318167004180 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167004181 catalytic residue [active] 318167004182 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 318167004183 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 318167004184 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167004185 metal binding site [ion binding]; metal-binding site 318167004186 active site 318167004187 I-site; other site 318167004188 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 318167004189 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 318167004190 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 318167004191 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167004192 NAD(P) binding site [chemical binding]; other site 318167004193 LDH/MDH dimer interface [polypeptide binding]; other site 318167004194 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 318167004195 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167004196 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 318167004197 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 318167004198 putative NAD(P) binding site [chemical binding]; other site 318167004199 active site 318167004200 putative substrate binding site [chemical binding]; other site 318167004201 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 318167004202 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 318167004203 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 318167004204 putative ADP-binding pocket [chemical binding]; other site 318167004205 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 318167004206 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 318167004207 putative ADP-binding pocket [chemical binding]; other site 318167004208 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 318167004209 active site 318167004210 colanic acid exporter; Provisional; Region: PRK10459 318167004211 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 318167004212 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167004213 Bacterial sugar transferase; Region: Bac_transf; cl00939 318167004214 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 318167004215 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 318167004216 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 318167004217 SLBB domain; Region: SLBB; pfam10531 318167004218 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 318167004219 Chain length determinant protein; Region: Wzz; cl15801 318167004220 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167004221 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 318167004222 O-Antigen ligase; Region: Wzy_C; cl04850 318167004223 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 318167004224 active site 318167004225 tetramer interface; other site 318167004226 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 318167004227 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 318167004228 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 318167004229 dimer interface [polypeptide binding]; other site 318167004230 active site 318167004231 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 318167004232 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167004233 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 318167004234 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 318167004235 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167004236 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 318167004237 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 318167004238 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 318167004239 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 318167004240 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 318167004241 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 318167004242 dimerization interface 3.5A [polypeptide binding]; other site 318167004243 active site 318167004244 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 318167004245 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318167004246 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318167004247 cell division protein DedD; Provisional; Region: PRK11633 318167004248 Sporulation related domain; Region: SPOR; cl10051 318167004249 Colicin V production protein; Region: Colicin_V; cl00567 318167004250 amidophosphoribosyltransferase; Provisional; Region: PRK09246 318167004251 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 318167004252 active site 318167004253 tetramer interface [polypeptide binding]; other site 318167004254 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 318167004255 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167004256 DNA topoisomerase III; Provisional; Region: PRK07726 318167004257 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 318167004258 active site 318167004259 putative interdomain interaction site [polypeptide binding]; other site 318167004260 putative metal-binding site [ion binding]; other site 318167004261 putative nucleotide binding site [chemical binding]; other site 318167004262 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 318167004263 domain I; other site 318167004264 DNA binding groove [nucleotide binding] 318167004265 phosphate binding site [ion binding]; other site 318167004266 domain II; other site 318167004267 domain III; other site 318167004268 nucleotide binding site [chemical binding]; other site 318167004269 catalytic site [active] 318167004270 domain IV; other site 318167004271 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 318167004272 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167004273 Helix-turn-helix domains; Region: HTH; cl00088 318167004274 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 318167004275 putative effector binding pocket; other site 318167004276 dimerization interface [polypeptide binding]; other site 318167004277 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 318167004278 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 318167004279 putative NAD(P) binding site [chemical binding]; other site 318167004280 dimer interface [polypeptide binding]; other site 318167004281 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 318167004282 ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 318167004283 ABC transporter signature motif; other site 318167004284 Walker B; other site 318167004285 D-loop; other site 318167004286 H-loop/switch region; other site 318167004287 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 318167004288 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167004289 Walker A/P-loop; other site 318167004290 ATP binding site [chemical binding]; other site 318167004291 Q-loop/lid; other site 318167004292 ABC transporter signature motif; other site 318167004293 Walker B; other site 318167004294 D-loop; other site 318167004295 H-loop/switch region; other site 318167004296 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 318167004297 putative catalytic residue [active] 318167004298 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 318167004299 dimer interface [polypeptide binding]; other site 318167004300 FMN binding site [chemical binding]; other site 318167004301 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 318167004302 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318167004303 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 318167004304 XdhC Rossmann domain; Region: XdhC_C; pfam13478 318167004305 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 318167004306 Ligand binding site; other site 318167004307 metal-binding site 318167004308 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 318167004309 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 318167004310 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 318167004311 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 318167004312 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318167004313 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 318167004314 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318167004315 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318167004316 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 318167004317 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167004318 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167004319 dimer interface [polypeptide binding]; other site 318167004320 putative CheW interface [polypeptide binding]; other site 318167004321 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 318167004322 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 318167004323 dimerization interface [polypeptide binding]; other site 318167004324 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167004325 metal binding site [ion binding]; metal-binding site 318167004326 active site 318167004327 I-site; other site 318167004328 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 318167004329 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 318167004330 putative catalytic site [active] 318167004331 putative phosphate binding site [ion binding]; other site 318167004332 active site 318167004333 metal binding site A [ion binding]; metal-binding site 318167004334 DNA binding site [nucleotide binding] 318167004335 putative AP binding site [nucleotide binding]; other site 318167004336 putative metal binding site B [ion binding]; other site 318167004337 YCII-related domain; Region: YCII; cl00999 318167004338 Intracellular septation protein A; Region: IspA; cl01098 318167004339 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318167004340 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 318167004341 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 318167004342 substrate binding site [chemical binding]; other site 318167004343 active site 318167004344 catalytic residues [active] 318167004345 heterodimer interface [polypeptide binding]; other site 318167004346 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 318167004347 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 318167004348 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167004349 catalytic residue [active] 318167004350 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 318167004351 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 318167004352 active site 318167004353 ribulose/triose binding site [chemical binding]; other site 318167004354 phosphate binding site [ion binding]; other site 318167004355 substrate (anthranilate) binding pocket [chemical binding]; other site 318167004356 product (indole) binding pocket [chemical binding]; other site 318167004357 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 318167004358 active site 318167004359 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 318167004360 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 318167004361 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 318167004362 Glutamine amidotransferase class-I; Region: GATase; pfam00117 318167004363 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 318167004364 glutamine binding [chemical binding]; other site 318167004365 catalytic triad [active] 318167004366 anthranilate synthase component I; Provisional; Region: PRK13564 318167004367 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 318167004368 chorismate binding enzyme; Region: Chorismate_bind; cl10555 318167004369 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 318167004370 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 318167004371 ScpA/B protein; Region: ScpA_ScpB; cl00598 318167004372 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 318167004373 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167004374 Helix-turn-helix domains; Region: HTH; cl00088 318167004375 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 318167004376 putative effector binding pocket; other site 318167004377 dimerization interface [polypeptide binding]; other site 318167004378 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167004379 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 318167004380 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318167004381 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 318167004382 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 318167004383 RNA binding surface [nucleotide binding]; other site 318167004384 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 318167004385 probable active site [active] 318167004386 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 318167004387 IHF dimer interface [polypeptide binding]; other site 318167004388 IHF - DNA interface [nucleotide binding]; other site 318167004389 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 318167004390 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 318167004391 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 318167004392 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 318167004393 Peptidase M15; Region: Peptidase_M15_3; cl01194 318167004394 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 318167004395 5S rRNA interface [nucleotide binding]; other site 318167004396 CTC domain interface [polypeptide binding]; other site 318167004397 L16 interface [polypeptide binding]; other site 318167004398 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 318167004399 AsmA-like C-terminal region; Region: AsmA_2; cl15864 318167004400 Family of unknown function (DUF490); Region: DUF490; pfam04357 318167004401 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 318167004402 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 318167004403 Surface antigen; Region: Bac_surface_Ag; cl03097 318167004404 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 318167004405 catalytic nucleophile [active] 318167004406 FOG: CBS domain [General function prediction only]; Region: COG0517 318167004407 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 318167004408 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 318167004409 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 318167004410 ATP binding site [chemical binding]; other site 318167004411 putative Mg++ binding site [ion binding]; other site 318167004412 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 318167004413 nucleotide binding region [chemical binding]; other site 318167004414 ATP-binding site [chemical binding]; other site 318167004415 Helicase associated domain (HA2); Region: HA2; cl04503 318167004416 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 318167004417 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 318167004418 Somatotropin/prolactin hormone family; Region: growth_hormone_like; cl07831 318167004419 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 318167004420 Helix-turn-helix domains; Region: HTH; cl00088 318167004421 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 318167004422 substrate binding site [chemical binding]; other site 318167004423 dimerization interface [polypeptide binding]; other site 318167004424 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 318167004425 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 318167004426 active site 318167004427 substrate binding site [chemical binding]; other site 318167004428 cosubstrate binding site; other site 318167004429 catalytic site [active] 318167004430 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 318167004431 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 318167004432 dimerization interface [polypeptide binding]; other site 318167004433 putative ATP binding site [chemical binding]; other site 318167004434 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318167004435 active site 318167004436 Predicted permease [General function prediction only]; Region: COG2056 318167004437 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 318167004438 peroxidase; Provisional; Region: PRK15000 318167004439 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 318167004440 dimer interface [polypeptide binding]; other site 318167004441 decamer (pentamer of dimers) interface [polypeptide binding]; other site 318167004442 catalytic triad [active] 318167004443 peroxidatic and resolving cysteines [active] 318167004444 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 318167004445 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 318167004446 dimer interface [polypeptide binding]; other site 318167004447 catalytic site [active] 318167004448 putative active site [active] 318167004449 putative substrate binding site [chemical binding]; other site 318167004450 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167004451 ligand binding site [chemical binding]; other site 318167004452 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 318167004453 active site 318167004454 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 318167004455 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 318167004456 Gram-negative bacterial tonB protein; Region: TonB; cl10048 318167004457 translocation protein TolB; Provisional; Region: tolB; PRK04792 318167004458 TolB amino-terminal domain; Region: TolB_N; cl00639 318167004459 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318167004460 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318167004461 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318167004462 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318167004463 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 318167004464 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167004465 ligand binding site [chemical binding]; other site 318167004466 tol-pal system protein YbgF; Provisional; Region: PRK10803 318167004467 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 318167004468 binding surface 318167004469 TPR motif; other site 318167004470 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 318167004471 GSH binding site [chemical binding]; other site 318167004472 catalytic residues [active] 318167004473 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 318167004474 ATP binding site [chemical binding]; other site 318167004475 putative Mg++ binding site [ion binding]; other site 318167004476 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 318167004477 nucleotide binding region [chemical binding]; other site 318167004478 ATP-binding site [chemical binding]; other site 318167004479 acetyl-CoA synthetase; Provisional; Region: PRK00174 318167004480 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 318167004481 AMP-binding enzyme; Region: AMP-binding; cl15778 318167004482 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167004483 Sodium:solute symporter family; Region: SSF; cl00456 318167004484 PAS fold; Region: PAS_7; pfam12860 318167004485 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 318167004486 dimer interface [polypeptide binding]; other site 318167004487 phosphorylation site [posttranslational modification] 318167004488 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 318167004489 ATP binding site [chemical binding]; other site 318167004490 Mg2+ binding site [ion binding]; other site 318167004491 G-X-G motif; other site 318167004492 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 318167004493 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167004494 active site 318167004495 phosphorylation site [posttranslational modification] 318167004496 intermolecular recognition site; other site 318167004497 dimerization interface [polypeptide binding]; other site 318167004498 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318167004499 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 318167004500 putative C-terminal domain interface [polypeptide binding]; other site 318167004501 putative GSH binding site (G-site) [chemical binding]; other site 318167004502 putative dimer interface [polypeptide binding]; other site 318167004503 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318167004504 N-terminal domain interface [polypeptide binding]; other site 318167004505 LysE type translocator; Region: LysE; cl00565 318167004506 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 318167004507 Helix-turn-helix domains; Region: HTH; cl00088 318167004508 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 318167004509 putative dimerization interface [polypeptide binding]; other site 318167004510 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 318167004511 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 318167004512 inhibitor-cofactor binding pocket; inhibition site 318167004513 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167004514 catalytic residue [active] 318167004515 biotin synthase; Provisional; Region: PRK15108 318167004516 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 318167004517 FeS/SAM binding site; other site 318167004518 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 318167004519 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 318167004520 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 318167004521 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318167004522 catalytic residue [active] 318167004523 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 318167004524 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 318167004525 S-adenosylmethionine binding site [chemical binding]; other site 318167004526 AAA domain; Region: AAA_26; pfam13500 318167004527 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167004528 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167004529 metal binding site [ion binding]; metal-binding site 318167004530 active site 318167004531 I-site; other site 318167004532 Protein of unknown function, DUF; Region: DUF413; cl10479 318167004533 transcriptional regulator HdfR; Provisional; Region: PRK03601 318167004534 Helix-turn-helix domains; Region: HTH; cl00088 318167004535 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 318167004536 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 318167004537 DNA ligase; Provisional; Region: PRK09125 318167004538 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 318167004539 DNA binding site [nucleotide binding] 318167004540 active site 318167004541 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 318167004542 DNA binding site [nucleotide binding] 318167004543 Low molecular weight phosphatase family; Region: LMWPc; cd00115 318167004544 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 318167004545 active site 318167004546 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 318167004547 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 318167004548 GTP/Mg2+ binding site [chemical binding]; other site 318167004549 G4 box; other site 318167004550 G5 box; other site 318167004551 G1 box; other site 318167004552 Switch I region; other site 318167004553 G2 box; other site 318167004554 G3 box; other site 318167004555 Switch II region; other site 318167004556 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 318167004557 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 318167004558 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 318167004559 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 318167004560 ribonuclease E; Reviewed; Region: rne; PRK10811 318167004561 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 318167004562 homodimer interface [polypeptide binding]; other site 318167004563 oligonucleotide binding site [chemical binding]; other site 318167004564 ribonuclease E; Reviewed; Region: rne; PRK10811 318167004565 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 318167004566 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 318167004567 RNA binding surface [nucleotide binding]; other site 318167004568 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 318167004569 active site 318167004570 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 318167004571 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 318167004572 motif II; other site 318167004573 Maf-like protein; Region: Maf; pfam02545 318167004574 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 318167004575 active site 318167004576 dimer interface [polypeptide binding]; other site 318167004577 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 318167004578 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 318167004579 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 318167004580 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 318167004581 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 318167004582 dimer interface [polypeptide binding]; other site 318167004583 active site 318167004584 CoA binding pocket [chemical binding]; other site 318167004585 Acyl transferase domain; Region: Acyl_transf_1; cl08282 318167004586 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 318167004587 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 318167004588 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 318167004589 NAD(P) binding site [chemical binding]; other site 318167004590 homotetramer interface [polypeptide binding]; other site 318167004591 homodimer interface [polypeptide binding]; other site 318167004592 active site 318167004593 Phosphopantetheine attachment site; Region: PP-binding; cl09936 318167004594 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 318167004595 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 318167004596 dimer interface [polypeptide binding]; other site 318167004597 active site 318167004598 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 318167004599 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 318167004600 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167004601 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 318167004602 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 318167004603 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 318167004604 [4Fe-4S] binding site [ion binding]; other site 318167004605 molybdopterin cofactor binding site; other site 318167004606 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 318167004607 molybdopterin cofactor binding site; other site 318167004608 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 318167004609 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 318167004610 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 318167004611 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 318167004612 hypothetical protein; Validated; Region: PRK09071 318167004613 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 318167004614 ANTAR domain; Region: ANTAR; cl04297 318167004615 nitrite reductase subunit NirD; Provisional; Region: PRK14989 318167004616 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167004617 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 318167004618 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 318167004619 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 318167004620 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 318167004621 putative substrate translocation pore; other site 318167004622 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 318167004623 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 318167004624 active site 318167004625 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 318167004626 Catalytic domain of Protein Kinases; Region: PKc; cd00180 318167004627 active site 318167004628 ATP binding site [chemical binding]; other site 318167004629 substrate binding site [chemical binding]; other site 318167004630 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167004631 substrate binding site [chemical binding]; other site 318167004632 activation loop (A-loop); other site 318167004633 activation loop (A-loop); other site 318167004634 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 318167004635 Curlin associated repeat; Region: Curlin_rpt; pfam07012 318167004636 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 318167004637 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 318167004638 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 318167004639 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 318167004640 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 318167004641 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 318167004642 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 318167004643 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 318167004644 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 318167004645 DNA binding residues [nucleotide binding] 318167004646 dimerization interface [polypeptide binding]; other site 318167004647 Curli assembly protein CsgE; Region: CsgE; cl08115 318167004648 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 318167004649 TolB amino-terminal domain; Region: TolB_N; cl00639 318167004650 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 318167004651 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 318167004652 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 318167004653 protein binding site [polypeptide binding]; other site 318167004654 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 318167004655 nucleotide binding site/active site [active] 318167004656 HIT family signature motif; other site 318167004657 catalytic residue [active] 318167004658 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 318167004659 CoenzymeA binding site [chemical binding]; other site 318167004660 subunit interaction site [polypeptide binding]; other site 318167004661 PHB binding site; other site 318167004662 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 318167004663 CoenzymeA binding site [chemical binding]; other site 318167004664 subunit interaction site [polypeptide binding]; other site 318167004665 PHB binding site; other site 318167004666 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 318167004667 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 318167004668 putative dimer interface [polypeptide binding]; other site 318167004669 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318167004670 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 318167004671 N-terminal plug; other site 318167004672 ligand-binding site [chemical binding]; other site 318167004673 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 318167004674 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167004675 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167004676 substrate binding site [chemical binding]; other site 318167004677 DoxX; Region: DoxX; cl00976 318167004678 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 318167004679 putative FMN binding site [chemical binding]; other site 318167004680 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 318167004681 putative GSH binding site (G-site) [chemical binding]; other site 318167004682 active site cysteine [active] 318167004683 putative C-terminal domain interface [polypeptide binding]; other site 318167004684 putative dimer interface [polypeptide binding]; other site 318167004685 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 318167004686 putative N-terminal domain interface [polypeptide binding]; other site 318167004687 putative dimer interface [polypeptide binding]; other site 318167004688 putative substrate binding pocket (H-site) [chemical binding]; other site 318167004689 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 318167004690 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 318167004691 active site residue [active] 318167004692 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167004693 metal binding site [ion binding]; metal-binding site 318167004694 active site 318167004695 I-site; other site 318167004696 recombination protein RecR; Reviewed; Region: recR; PRK00076 318167004697 RecR protein; Region: RecR; pfam02132 318167004698 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 318167004699 putative active site [active] 318167004700 putative metal-binding site [ion binding]; other site 318167004701 tetramer interface [polypeptide binding]; other site 318167004702 heat shock protein 90; Provisional; Region: PRK05218 318167004703 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 318167004704 ATP binding site [chemical binding]; other site 318167004705 Mg2+ binding site [ion binding]; other site 318167004706 G-X-G motif; other site 318167004707 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 318167004708 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 318167004709 adenylate kinase; Reviewed; Region: adk; PRK00279 318167004710 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 318167004711 AMP-binding site [chemical binding]; other site 318167004712 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 318167004713 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 318167004714 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 318167004715 substrate binding site [chemical binding]; other site 318167004716 ATP binding site [chemical binding]; other site 318167004717 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 318167004718 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 318167004719 homodimer interface [polypeptide binding]; other site 318167004720 NAD binding pocket [chemical binding]; other site 318167004721 ATP binding pocket [chemical binding]; other site 318167004722 Mg binding site [ion binding]; other site 318167004723 active-site loop [active] 318167004724 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167004725 Thiamine-precursor transporter protein (ThiW); Region: ThiW; cl01952 318167004726 two component system sensor kinase SsrA; Provisional; Region: PRK15347 318167004727 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167004728 metal binding site [ion binding]; metal-binding site 318167004729 active site 318167004730 I-site; other site 318167004731 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 318167004732 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 318167004733 Sodium:solute symporter family; Region: SSF; cl00456 318167004734 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 318167004735 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 318167004736 ligand binding site [chemical binding]; other site 318167004737 flexible hinge region; other site 318167004738 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 318167004739 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 318167004740 metal binding triad; other site 318167004741 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 318167004742 active site 318167004743 catalytic site [active] 318167004744 substrate binding site [chemical binding]; other site 318167004745 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 318167004746 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 318167004747 dimer interface [polypeptide binding]; other site 318167004748 active site 318167004749 CoA binding pocket [chemical binding]; other site 318167004750 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318167004751 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318167004752 DNA-binding site [nucleotide binding]; DNA binding site 318167004753 FCD domain; Region: FCD; cl11656 318167004754 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 318167004755 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 318167004756 active site 318167004757 motif I; other site 318167004758 motif II; other site 318167004759 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318167004760 Winged helix-turn helix; Region: HTH_29; pfam13551 318167004761 Helix-turn-helix domains; Region: HTH; cl00088 318167004762 Helix-turn-helix domains; Region: HTH; cl00088 318167004763 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 318167004764 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 318167004765 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 318167004766 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 318167004767 Walker A motif; other site 318167004768 ATP binding site [chemical binding]; other site 318167004769 Walker B motif; other site 318167004770 Winged helix-turn helix; Region: HTH_33; pfam13592 318167004771 Integrase core domain; Region: rve; cl01316 318167004772 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 318167004773 Helix-turn-helix domains; Region: HTH; cl00088 318167004774 Winged helix-turn helix; Region: HTH_33; pfam13592 318167004775 Integrase core domain; Region: rve; cl01316 318167004776 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 318167004777 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 318167004778 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 318167004779 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 318167004780 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167004781 Walker A/P-loop; other site 318167004782 ATP binding site [chemical binding]; other site 318167004783 Q-loop/lid; other site 318167004784 ABC transporter signature motif; other site 318167004785 Walker B; other site 318167004786 D-loop; other site 318167004787 H-loop/switch region; other site 318167004788 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 318167004789 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167004790 Walker A/P-loop; other site 318167004791 ATP binding site [chemical binding]; other site 318167004792 Q-loop/lid; other site 318167004793 ABC transporter signature motif; other site 318167004794 Walker B; other site 318167004795 D-loop; other site 318167004796 H-loop/switch region; other site 318167004797 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 318167004798 ABC-2 type transporter; Region: ABC2_membrane; cl11417 318167004799 ABC-2 type transporter; Region: ABC2_membrane; cl11417 318167004800 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 318167004801 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 318167004802 putative dimer interface [polypeptide binding]; other site 318167004803 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 318167004804 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 318167004805 DNA binding residues [nucleotide binding] 318167004806 dimer interface [polypeptide binding]; other site 318167004807 [2Fe-2S] cluster binding site [ion binding]; other site 318167004808 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167004809 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 318167004810 active site 318167004811 metal binding site [ion binding]; metal-binding site 318167004812 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 318167004813 active site pocket [active] 318167004814 oxyanion hole [active] 318167004815 catalytic triad [active] 318167004816 active site nucleophile [active] 318167004817 Peptidase family M48; Region: Peptidase_M48; cl12018 318167004818 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 318167004819 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 318167004820 PAS domain; Region: PAS_9; pfam13426 318167004821 putative active site [active] 318167004822 heme pocket [chemical binding]; other site 318167004823 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167004824 metal binding site [ion binding]; metal-binding site 318167004825 active site 318167004826 I-site; other site 318167004827 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 318167004828 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 318167004829 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 318167004830 dimerization interface [polypeptide binding]; other site 318167004831 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 318167004832 dimer interface [polypeptide binding]; other site 318167004833 phosphorylation site [posttranslational modification] 318167004834 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 318167004835 ATP binding site [chemical binding]; other site 318167004836 Mg2+ binding site [ion binding]; other site 318167004837 G-X-G motif; other site 318167004838 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 318167004839 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167004840 active site 318167004841 phosphorylation site [posttranslational modification] 318167004842 intermolecular recognition site; other site 318167004843 dimerization interface [polypeptide binding]; other site 318167004844 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 318167004845 DNA binding site [nucleotide binding] 318167004846 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 318167004847 AmiB activator; Provisional; Region: PRK11637 318167004848 Peptidase family M23; Region: Peptidase_M23; pfam01551 318167004849 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 318167004850 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 318167004851 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167004852 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 318167004853 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 318167004854 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 318167004855 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 318167004856 putative active site [active] 318167004857 catalytic site [active] 318167004858 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 318167004859 putative active site [active] 318167004860 catalytic site [active] 318167004861 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 318167004862 Domain of unknown function (DUF1971); Region: DUF1971; cl01451 318167004863 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 318167004864 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167004865 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 318167004866 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318167004867 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 318167004868 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 318167004869 iron binding site [ion binding]; other site 318167004870 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167004871 Helix-turn-helix domains; Region: HTH; cl00088 318167004872 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 318167004873 dimerization interface [polypeptide binding]; other site 318167004874 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 318167004875 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318167004876 putative substrate translocation pore; other site 318167004877 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167004878 Coenzyme A binding pocket [chemical binding]; other site 318167004879 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 318167004880 putative metal binding site [ion binding]; other site 318167004881 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 318167004882 Ion transport protein; Region: Ion_trans; pfam00520 318167004883 Ion channel; Region: Ion_trans_2; cl11596 318167004884 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 318167004885 MatE; Region: MatE; cl10513 318167004886 MatE; Region: MatE; cl10513 318167004887 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 318167004888 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 318167004889 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 318167004890 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 318167004891 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 318167004892 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 318167004893 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167004894 Coenzyme A binding pocket [chemical binding]; other site 318167004895 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 318167004896 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167004897 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 318167004898 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167004899 Coenzyme A binding pocket [chemical binding]; other site 318167004900 Integral membrane protein TerC family; Region: TerC; cl10468 318167004901 asparagine synthetase B; Provisional; Region: asnB; PRK09431 318167004902 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 318167004903 active site 318167004904 dimer interface [polypeptide binding]; other site 318167004905 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 318167004906 Ligand Binding Site [chemical binding]; other site 318167004907 Molecular Tunnel; other site 318167004908 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 318167004909 ACT domain; Region: ACT_3; pfam10000 318167004910 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 318167004911 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 318167004912 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 318167004913 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 318167004914 PA/protease or protease-like domain interface [polypeptide binding]; other site 318167004915 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 318167004916 metal binding site [ion binding]; metal-binding site 318167004917 UMP phosphatase; Provisional; Region: PRK10444 318167004918 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 318167004919 active site 318167004920 motif I; other site 318167004921 motif II; other site 318167004922 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 318167004923 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 318167004924 AMP-binding enzyme; Region: AMP-binding; cl15778 318167004925 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167004926 putative transposase OrfB; Reviewed; Region: PHA02517 318167004927 HTH-like domain; Region: HTH_21; pfam13276 318167004928 Integrase core domain; Region: rve; cl01316 318167004929 Integrase core domain; Region: rve_3; cl15866 318167004930 Helix-turn-helix domains; Region: HTH; cl00088 318167004931 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 318167004932 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 318167004933 ligand binding site [chemical binding]; other site 318167004934 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 318167004935 NADP binding site [chemical binding]; other site 318167004936 dimer interface [polypeptide binding]; other site 318167004937 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318167004938 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 318167004939 C-terminal domain interface [polypeptide binding]; other site 318167004940 GSH binding site (G-site) [chemical binding]; other site 318167004941 dimer interface [polypeptide binding]; other site 318167004942 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318167004943 N-terminal domain interface [polypeptide binding]; other site 318167004944 dimer interface [polypeptide binding]; other site 318167004945 substrate binding pocket (H-site) [chemical binding]; other site 318167004946 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167004947 Helix-turn-helix domains; Region: HTH; cl00088 318167004948 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 318167004949 putative effector binding pocket; other site 318167004950 dimerization interface [polypeptide binding]; other site 318167004951 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 318167004952 agmatine deiminase; Region: agmatine_aguA; TIGR03380 318167004953 amidase; Validated; Region: PRK06565 318167004954 Amidase; Region: Amidase; cl11426 318167004955 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 318167004956 cystathionine beta-lyase; Provisional; Region: PRK09028 318167004957 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 318167004958 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318167004959 catalytic residue [active] 318167004960 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 318167004961 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 318167004962 putative ligand binding site [chemical binding]; other site 318167004963 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 318167004964 dimer interface [polypeptide binding]; other site 318167004965 phosphorylation site [posttranslational modification] 318167004966 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 318167004967 ATP binding site [chemical binding]; other site 318167004968 Mg2+ binding site [ion binding]; other site 318167004969 G-X-G motif; other site 318167004970 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 318167004971 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167004972 active site 318167004973 phosphorylation site [posttranslational modification] 318167004974 intermolecular recognition site; other site 318167004975 dimerization interface [polypeptide binding]; other site 318167004976 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 318167004977 DNA binding site [nucleotide binding] 318167004978 proteobacterial sortase system OmpA family protein; Region: pdsO; TIGR03789 318167004979 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167004980 ligand binding site [chemical binding]; other site 318167004981 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 318167004982 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 318167004983 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 318167004984 metal ion-dependent adhesion site (MIDAS); other site 318167004985 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 318167004986 active site 318167004987 catalytic site [active] 318167004988 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 318167004989 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 318167004990 putative valine binding site [chemical binding]; other site 318167004991 dimer interface [polypeptide binding]; other site 318167004992 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08979 318167004993 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 318167004994 PYR/PP interface [polypeptide binding]; other site 318167004995 dimer interface [polypeptide binding]; other site 318167004996 TPP binding site [chemical binding]; other site 318167004997 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 318167004998 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 318167004999 TPP-binding site [chemical binding]; other site 318167005000 dimer interface [polypeptide binding]; other site 318167005001 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 318167005002 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 318167005003 putative substrate translocation pore; other site 318167005004 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 318167005005 Sulfate transporter family; Region: Sulfate_transp; cl15842 318167005006 Sulfate transporter family; Region: Sulfate_transp; cl15842 318167005007 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 318167005008 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 318167005009 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 318167005010 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 318167005011 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318167005012 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318167005013 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 318167005014 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 318167005015 Dicarboxylate transport; Region: DctA-YdbH; cl14674 318167005016 cytidine deaminase; Provisional; Region: PRK09027 318167005017 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 318167005018 active site 318167005019 catalytic motif [active] 318167005020 Zn binding site [ion binding]; other site 318167005021 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 318167005022 exonuclease I; Provisional; Region: sbcB; PRK11779 318167005023 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 318167005024 active site 318167005025 catalytic site [active] 318167005026 substrate binding site [chemical binding]; other site 318167005027 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 318167005028 integrase; Provisional; Region: PRK09692 318167005029 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 318167005030 active site 318167005031 Int/Topo IB signature motif; other site 318167005032 Adhesin biosynthesis transcription regulatory protein; Region: PapB; cl04012 318167005033 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 318167005034 putative metal binding site [ion binding]; other site 318167005035 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 318167005036 non-specific DNA binding site [nucleotide binding]; other site 318167005037 salt bridge; other site 318167005038 Predicted transcriptional regulator [Transcription]; Region: COG2932 318167005039 sequence-specific DNA binding site [nucleotide binding]; other site 318167005040 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 318167005041 Catalytic site [active] 318167005042 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 318167005043 Helix-turn-helix domains; Region: HTH; cl00088 318167005044 Replication protein P; Region: Phage_lambda_P; pfam06992 318167005045 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 318167005046 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 318167005047 active site 318167005048 DNA binding site [nucleotide binding] 318167005049 Int/Topo IB signature motif; other site 318167005050 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 318167005051 non-specific DNA binding site [nucleotide binding]; other site 318167005052 salt bridge; other site 318167005053 sequence-specific DNA binding site [nucleotide binding]; other site 318167005054 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 318167005055 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318167005056 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318167005057 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318167005058 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 318167005059 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 318167005060 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 318167005061 putative active site [active] 318167005062 putative metal binding residues [ion binding]; other site 318167005063 signature motif; other site 318167005064 putative triphosphate binding site [ion binding]; other site 318167005065 dimer interface [polypeptide binding]; other site 318167005066 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 318167005067 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 318167005068 catalytic residues [active] 318167005069 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 318167005070 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 318167005071 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 318167005072 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 318167005073 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 318167005074 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 318167005075 oligomer interface [polypeptide binding]; other site 318167005076 active site residues [active] 318167005077 Uncharacterized conserved protein (DUF2190); Region: DUF2190; cl02289 318167005078 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 318167005079 Mu-like prophage protein [General function prediction only]; Region: COG3941 318167005080 tape measure domain; Region: tape_meas_nterm; TIGR02675 318167005081 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 318167005082 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 318167005083 S-adenosylmethionine binding site [chemical binding]; other site 318167005084 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 318167005085 DNA-binding site [nucleotide binding]; DNA binding site 318167005086 RNA-binding motif; other site 318167005087 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 318167005088 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167005089 Walker A/P-loop; other site 318167005090 ATP binding site [chemical binding]; other site 318167005091 Q-loop/lid; other site 318167005092 ABC transporter signature motif; other site 318167005093 Walker B; other site 318167005094 D-loop; other site 318167005095 H-loop/switch region; other site 318167005096 ABC-2 type transporter; Region: ABC2_membrane; cl11417 318167005097 hypothetical protein; Provisional; Region: PRK11239 318167005098 Protein of unknown function, DUF480; Region: DUF480; cl01209 318167005099 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 318167005100 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 318167005101 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 318167005102 arginine decarboxylase; Provisional; Region: PRK05354 318167005103 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 318167005104 dimer interface [polypeptide binding]; other site 318167005105 active site 318167005106 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318167005107 catalytic residues [active] 318167005108 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 318167005109 Adenosylmethionine decarboxylase; Region: SAM_decarbox; cl03253 318167005110 Arginase family; Region: Arginase; cl00306 318167005111 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 318167005112 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 318167005113 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 318167005114 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 318167005115 YceI-like domain; Region: YceI; cl01001 318167005116 Protein of unknown function (DUF3802); Region: DUF3802; pfam12290 318167005117 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 318167005118 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 318167005119 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 318167005120 Lamin Tail Domain; Region: LTD; pfam00932 318167005121 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 318167005122 generic binding surface II; other site 318167005123 generic binding surface I; other site 318167005124 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 318167005125 putative catalytic site [active] 318167005126 putative metal binding site [ion binding]; other site 318167005127 putative phosphate binding site [ion binding]; other site 318167005128 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 318167005129 polycystin cation channel protein; Region: PCC; TIGR00864 318167005130 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 318167005131 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 318167005132 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 318167005133 dimer interface [polypeptide binding]; other site 318167005134 motif 1; other site 318167005135 active site 318167005136 motif 2; other site 318167005137 motif 3; other site 318167005138 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 318167005139 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 318167005140 putative tRNA-binding site [nucleotide binding]; other site 318167005141 B3/4 domain; Region: B3_4; cl11458 318167005142 tRNA synthetase B5 domain; Region: B5; cl08394 318167005143 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 318167005144 dimer interface [polypeptide binding]; other site 318167005145 motif 1; other site 318167005146 motif 3; other site 318167005147 motif 2; other site 318167005148 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 318167005149 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 318167005150 IHF dimer interface [polypeptide binding]; other site 318167005151 IHF - DNA interface [nucleotide binding]; other site 318167005152 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 318167005153 putative acyl-acceptor binding pocket; other site 318167005154 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318167005155 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 318167005156 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 318167005157 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 318167005158 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 318167005159 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 318167005160 substrate binding site [chemical binding]; other site 318167005161 glutamase interaction surface [polypeptide binding]; other site 318167005162 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 318167005163 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 318167005164 catalytic residues [active] 318167005165 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 318167005166 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 318167005167 putative active site [active] 318167005168 oxyanion strand; other site 318167005169 catalytic triad [active] 318167005170 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 318167005171 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 318167005172 active site 318167005173 motif I; other site 318167005174 motif II; other site 318167005175 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 318167005176 putative active site pocket [active] 318167005177 4-fold oligomerization interface [polypeptide binding]; other site 318167005178 metal binding residues [ion binding]; metal-binding site 318167005179 3-fold/trimer interface [polypeptide binding]; other site 318167005180 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 318167005181 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 318167005182 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167005183 homodimer interface [polypeptide binding]; other site 318167005184 catalytic residue [active] 318167005185 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 318167005186 histidinol dehydrogenase; Region: hisD; TIGR00069 318167005187 NAD binding site [chemical binding]; other site 318167005188 dimerization interface [polypeptide binding]; other site 318167005189 product binding site; other site 318167005190 substrate binding site [chemical binding]; other site 318167005191 zinc binding site [ion binding]; other site 318167005192 catalytic residues [active] 318167005193 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 318167005194 ATP phosphoribosyltransferase; Region: HisG; cl15266 318167005195 HisG, C-terminal domain; Region: HisG_C; cl06867 318167005196 PAS domain S-box; Region: sensory_box; TIGR00229 318167005197 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 318167005198 putative active site [active] 318167005199 heme pocket [chemical binding]; other site 318167005200 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167005201 metal binding site [ion binding]; metal-binding site 318167005202 active site 318167005203 I-site; other site 318167005204 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 318167005205 Predicted permeases [General function prediction only]; Region: COG0701 318167005206 Predicted permease; Region: DUF318; pfam03773 318167005207 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 318167005208 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 318167005209 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167005210 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 318167005211 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 318167005212 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167005213 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 318167005214 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167005215 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 318167005216 AMP-binding enzyme; Region: AMP-binding; cl15778 318167005217 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167005218 ribonuclease D; Provisional; Region: PRK10829 318167005219 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 318167005220 catalytic site [active] 318167005221 putative active site [active] 318167005222 putative substrate binding site [chemical binding]; other site 318167005223 HRDC domain; Region: HRDC; cl02578 318167005224 Septum formation topological specificity factor MinE; Region: MinE; cl00538 318167005225 cell division inhibitor MinD; Provisional; Region: PRK10818 318167005226 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 318167005227 Switch I; other site 318167005228 Switch II; other site 318167005229 septum formation inhibitor; Reviewed; Region: minC; PRK04804 318167005230 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 318167005231 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 318167005232 YcgL domain; Region: YcgL; cl01189 318167005233 Transglycosylase SLT domain; Region: SLT_2; pfam13406 318167005234 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 318167005235 Flagellin N-methylase; Region: FliB; cl00497 318167005236 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 318167005237 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 318167005238 transmembrane helices; other site 318167005239 fatty acid metabolism regulator; Provisional; Region: PRK04984 318167005240 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318167005241 DNA-binding site [nucleotide binding]; DNA binding site 318167005242 FCD domain; Region: FCD; cl11656 318167005243 SpoVR family protein; Provisional; Region: PRK11767 318167005244 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 318167005245 Uncharacterized conserved protein [Function unknown]; Region: COG2718 318167005246 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 318167005247 PrkA family serine protein kinase; Provisional; Region: PRK15455 318167005248 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167005249 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 318167005250 superoxide dismutase; Provisional; Region: PRK10543 318167005251 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 318167005252 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 318167005253 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 318167005254 putative GSH binding site [chemical binding]; other site 318167005255 catalytic residues [active] 318167005256 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 318167005257 uracil-xanthine permease; Region: ncs2; TIGR00801 318167005258 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 318167005259 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167005260 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 318167005261 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 318167005262 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 318167005263 ArsC family; Region: ArsC; pfam03960 318167005264 catalytic residues [active] 318167005265 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 318167005266 Peptidase family M48; Region: Peptidase_M48; cl12018 318167005267 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 318167005268 TPR motif; other site 318167005269 binding surface 318167005270 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 318167005271 CPxP motif; other site 318167005272 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 318167005273 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 318167005274 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 318167005275 Ligand binding site; other site 318167005276 oligomer interface; other site 318167005277 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 318167005278 active site 318167005279 NAD binding site [chemical binding]; other site 318167005280 metal binding site [ion binding]; metal-binding site 318167005281 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 318167005282 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 318167005283 inhibitor-cofactor binding pocket; inhibition site 318167005284 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167005285 catalytic residue [active] 318167005286 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 318167005287 active site clefts [active] 318167005288 zinc binding site [ion binding]; other site 318167005289 dimer interface [polypeptide binding]; other site 318167005290 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 318167005291 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167005292 nucleophilic elbow; other site 318167005293 catalytic triad; other site 318167005294 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 318167005295 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 318167005296 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 318167005297 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 318167005298 metal binding site [ion binding]; metal-binding site 318167005299 dimer interface [polypeptide binding]; other site 318167005300 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 318167005301 ArsC family; Region: ArsC; pfam03960 318167005302 putative catalytic residues [active] 318167005303 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 318167005304 HPr interaction site; other site 318167005305 glycerol kinase (GK) interaction site [polypeptide binding]; other site 318167005306 active site 318167005307 phosphorylation site [posttranslational modification] 318167005308 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 318167005309 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 318167005310 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 318167005311 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 318167005312 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 318167005313 dimerization domain swap beta strand [polypeptide binding]; other site 318167005314 regulatory protein interface [polypeptide binding]; other site 318167005315 active site 318167005316 regulatory phosphorylation site [posttranslational modification]; other site 318167005317 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 318167005318 dimerization interface [polypeptide binding]; other site 318167005319 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167005320 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167005321 dimer interface [polypeptide binding]; other site 318167005322 putative CheW interface [polypeptide binding]; other site 318167005323 Chemotaxis phosphatase CheX; Region: CheX; cl15816 318167005324 Transcriptional regulators [Transcription]; Region: PurR; COG1609 318167005325 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 318167005326 DNA binding site [nucleotide binding] 318167005327 domain linker motif; other site 318167005328 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 318167005329 putative dimerization interface [polypeptide binding]; other site 318167005330 putative ligand binding site [chemical binding]; other site 318167005331 Protein of unknown function (DUF808); Region: DUF808; cl01002 318167005332 Protein of unknown function (DUF805); Region: DUF805; cl01224 318167005333 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 318167005334 Domain interface; other site 318167005335 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 318167005336 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 318167005337 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 318167005338 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 318167005339 Putative SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_2; cl00827 318167005340 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 318167005341 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318167005342 putative substrate translocation pore; other site 318167005343 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 318167005344 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 318167005345 Ligand Binding Site [chemical binding]; other site 318167005346 Protein of unknown function (DUF2492); Region: DUF2492; cl11278 318167005347 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 318167005348 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 318167005349 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 318167005350 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 318167005351 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 318167005352 Ca binding site [ion binding]; other site 318167005353 active site 318167005354 homodimer interface [polypeptide binding]; other site 318167005355 catalytic site [active] 318167005356 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 318167005357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167005358 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 318167005359 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 318167005360 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 318167005361 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 318167005362 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 318167005363 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 318167005364 glucose/galactose transporter; Region: gluP; TIGR01272 318167005365 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 318167005366 GAF domain; Region: GAF; cl15785 318167005367 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 318167005368 PAS domain; Region: PAS_9; pfam13426 318167005369 putative active site [active] 318167005370 heme pocket [chemical binding]; other site 318167005371 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167005372 metal binding site [ion binding]; metal-binding site 318167005373 active site 318167005374 I-site; other site 318167005375 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 318167005376 GAF domain; Region: GAF_2; pfam13185 318167005377 GAF domain; Region: GAF; cl15785 318167005378 PAS domain; Region: PAS_9; pfam13426 318167005379 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167005380 metal binding site [ion binding]; metal-binding site 318167005381 active site 318167005382 I-site; other site 318167005383 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 318167005384 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 318167005385 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 318167005386 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167005387 NAD(P) binding site [chemical binding]; other site 318167005388 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 318167005389 Helix-turn-helix domains; Region: HTH; cl00088 318167005390 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 318167005391 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 318167005392 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167005393 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 318167005394 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 318167005395 recombination factor protein RarA; Reviewed; Region: PRK13342 318167005396 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 318167005397 Walker A motif; other site 318167005398 ATP binding site [chemical binding]; other site 318167005399 Walker B motif; other site 318167005400 arginine finger; other site 318167005401 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 318167005402 CrcB-like protein; Region: CRCB; cl09114 318167005403 seryl-tRNA synthetase; Provisional; Region: PRK05431 318167005404 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 318167005405 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 318167005406 dimer interface [polypeptide binding]; other site 318167005407 active site 318167005408 motif 1; other site 318167005409 motif 2; other site 318167005410 motif 3; other site 318167005411 DsrC like protein; Region: DsrC; cl01101 318167005412 DsrE/DsrF-like family; Region: DrsE; cl00672 318167005413 DsrE/DsrF-like family; Region: DrsE; cl00672 318167005414 DsrE/DsrF-like family; Region: DrsE; cl00672 318167005415 YccA-like proteins; Region: YccA_like; cd10433 318167005416 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 318167005417 Helix-turn-helix domains; Region: HTH; cl00088 318167005418 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 318167005419 dimerization interface [polypeptide binding]; other site 318167005420 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 318167005421 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167005422 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 318167005423 active site 318167005424 ATP binding site [chemical binding]; other site 318167005425 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167005426 dimer interface [polypeptide binding]; other site 318167005427 putative CheW interface [polypeptide binding]; other site 318167005428 BCCT family transporter; Region: BCCT; cl00569 318167005429 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 318167005430 active site 318167005431 catalytic site [active] 318167005432 substrate binding site [chemical binding]; other site 318167005433 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 318167005434 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 318167005435 ligand binding site [chemical binding]; other site 318167005436 flexible hinge region; other site 318167005437 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 318167005438 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 318167005439 metal binding triad; other site 318167005440 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 318167005441 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 318167005442 FtsX-like permease family; Region: FtsX; cl15850 318167005443 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 318167005444 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 318167005445 Walker A/P-loop; other site 318167005446 ATP binding site [chemical binding]; other site 318167005447 Q-loop/lid; other site 318167005448 ABC transporter signature motif; other site 318167005449 Walker B; other site 318167005450 D-loop; other site 318167005451 H-loop/switch region; other site 318167005452 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 318167005453 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 318167005454 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 318167005455 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 318167005456 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 318167005457 HSP70 interaction site [polypeptide binding]; other site 318167005458 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 318167005459 substrate binding site [polypeptide binding]; other site 318167005460 dimer interface [polypeptide binding]; other site 318167005461 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 318167005462 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 318167005463 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 318167005464 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 318167005465 Walker A/P-loop; other site 318167005466 ATP binding site [chemical binding]; other site 318167005467 Q-loop/lid; other site 318167005468 ABC transporter signature motif; other site 318167005469 Walker B; other site 318167005470 D-loop; other site 318167005471 H-loop/switch region; other site 318167005472 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 318167005473 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 318167005474 dimer interface [polypeptide binding]; other site 318167005475 conserved gate region; other site 318167005476 ABC-ATPase subunit interface; other site 318167005477 NMT1-like family; Region: NMT1_2; cl15260 318167005478 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 318167005479 NMT1-like family; Region: NMT1_2; cl15260 318167005480 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 318167005481 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 318167005482 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 318167005483 putative ATP binding site [chemical binding]; other site 318167005484 putative substrate binding site [chemical binding]; other site 318167005485 OpgC protein; Region: OpgC_C; cl00792 318167005486 Acyltransferase family; Region: Acyl_transf_3; pfam01757 318167005487 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 318167005488 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318167005489 Zn2+ binding site [ion binding]; other site 318167005490 Mg2+ binding site [ion binding]; other site 318167005491 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 318167005492 putative active site [active] 318167005493 metal binding site [ion binding]; metal-binding site 318167005494 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167005495 Helix-turn-helix domains; Region: HTH; cl00088 318167005496 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 318167005497 dimerization interface [polypeptide binding]; other site 318167005498 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 318167005499 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 318167005500 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318167005501 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167005502 active site 318167005503 phosphorylation site [posttranslational modification] 318167005504 intermolecular recognition site; other site 318167005505 dimerization interface [polypeptide binding]; other site 318167005506 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 318167005507 DNA binding residues [nucleotide binding] 318167005508 dimerization interface [polypeptide binding]; other site 318167005509 Sodium:solute symporter family; Region: SSF; cl00456 318167005510 PAS fold; Region: PAS_7; pfam12860 318167005511 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 318167005512 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 318167005513 ATP binding site [chemical binding]; other site 318167005514 Mg2+ binding site [ion binding]; other site 318167005515 G-X-G motif; other site 318167005516 Response regulator receiver domain; Region: Response_reg; pfam00072 318167005517 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167005518 active site 318167005519 phosphorylation site [posttranslational modification] 318167005520 intermolecular recognition site; other site 318167005521 dimerization interface [polypeptide binding]; other site 318167005522 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 318167005523 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 318167005524 Walker A/P-loop; other site 318167005525 ATP binding site [chemical binding]; other site 318167005526 Q-loop/lid; other site 318167005527 ABC transporter signature motif; other site 318167005528 Walker B; other site 318167005529 D-loop; other site 318167005530 H-loop/switch region; other site 318167005531 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 318167005532 AMP-binding enzyme; Region: AMP-binding; cl15778 318167005533 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 318167005534 TM-ABC transporter signature motif; other site 318167005535 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 318167005536 TM-ABC transporter signature motif; other site 318167005537 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 318167005538 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 318167005539 putative ligand binding site [chemical binding]; other site 318167005540 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 318167005541 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 318167005542 Walker A/P-loop; other site 318167005543 ATP binding site [chemical binding]; other site 318167005544 Q-loop/lid; other site 318167005545 ABC transporter signature motif; other site 318167005546 Walker B; other site 318167005547 D-loop; other site 318167005548 H-loop/switch region; other site 318167005549 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 318167005550 AMP-binding enzyme; Region: AMP-binding; cl15778 318167005551 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 318167005552 CoenzymeA binding site [chemical binding]; other site 318167005553 subunit interaction site [polypeptide binding]; other site 318167005554 PHB binding site; other site 318167005555 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 318167005556 Ferritin-like domain; Region: Ferritin; pfam00210 318167005557 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 318167005558 dimerization interface [polypeptide binding]; other site 318167005559 DPS ferroxidase diiron center [ion binding]; other site 318167005560 ion pore; other site 318167005561 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167005562 Helix-turn-helix domains; Region: HTH; cl00088 318167005563 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 318167005564 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 318167005565 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318167005566 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 318167005567 ATP binding site [chemical binding]; other site 318167005568 Mg2+ binding site [ion binding]; other site 318167005569 G-X-G motif; other site 318167005570 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 318167005571 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167005572 active site 318167005573 phosphorylation site [posttranslational modification] 318167005574 intermolecular recognition site; other site 318167005575 dimerization interface [polypeptide binding]; other site 318167005576 Helix-turn-helix domains; Region: HTH; cl00088 318167005577 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318167005578 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 318167005579 TPR motif; other site 318167005580 binding surface 318167005581 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 318167005582 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167005583 Walker A motif; other site 318167005584 ATP binding site [chemical binding]; other site 318167005585 Walker B motif; other site 318167005586 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 318167005587 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 318167005588 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 318167005589 Cysteine-rich domain; Region: CCG; pfam02754 318167005590 Cysteine-rich domain; Region: CCG; pfam02754 318167005591 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 318167005592 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 318167005593 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 318167005594 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 318167005595 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167005596 Helix-turn-helix domains; Region: HTH; cl00088 318167005597 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 318167005598 putative effector binding pocket; other site 318167005599 dimerization interface [polypeptide binding]; other site 318167005600 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318167005601 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318167005602 DNA-binding site [nucleotide binding]; DNA binding site 318167005603 FCD domain; Region: FCD; cl11656 318167005604 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 318167005605 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 318167005606 tetramer interface [polypeptide binding]; other site 318167005607 active site 318167005608 Mg2+/Mn2+ binding site [ion binding]; other site 318167005609 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 318167005610 dimer interface [polypeptide binding]; other site 318167005611 Citrate synthase; Region: Citrate_synt; pfam00285 318167005612 active site 318167005613 citrylCoA binding site [chemical binding]; other site 318167005614 oxalacetate/citrate binding site [chemical binding]; other site 318167005615 coenzyme A binding site [chemical binding]; other site 318167005616 catalytic triad [active] 318167005617 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 318167005618 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 318167005619 substrate binding site [chemical binding]; other site 318167005620 ligand binding site [chemical binding]; other site 318167005621 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 318167005622 substrate binding site [chemical binding]; other site 318167005623 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 318167005624 PrpF protein; Region: PrpF; pfam04303 318167005625 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 318167005626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167005627 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 318167005628 catalytic triad [active] 318167005629 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 318167005630 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 318167005631 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 318167005632 dihydrodipicolinate synthase; Region: dapA; TIGR00674 318167005633 dimer interface [polypeptide binding]; other site 318167005634 active site 318167005635 catalytic residue [active] 318167005636 lipoprotein; Provisional; Region: PRK11679 318167005637 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 318167005638 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167005639 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 318167005640 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 318167005641 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 318167005642 CoenzymeA binding site [chemical binding]; other site 318167005643 subunit interaction site [polypeptide binding]; other site 318167005644 PHB binding site; other site 318167005645 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 318167005646 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318167005647 active site 318167005648 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 318167005649 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 318167005650 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 318167005651 putative active site [active] 318167005652 putative dimer interface [polypeptide binding]; other site 318167005653 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 318167005654 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 318167005655 active site 318167005656 DNA binding site [nucleotide binding] 318167005657 Haemolysin-III related; Region: HlyIII; cl03831 318167005658 Rhomboid family; Region: Rhomboid; cl11446 318167005659 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 318167005660 Ligand Binding Site [chemical binding]; other site 318167005661 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 318167005662 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 318167005663 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 318167005664 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318167005665 catalytic residue [active] 318167005666 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 318167005667 Protein of unknown function (DUF406); Region: DUF406; cl11449 318167005668 GAF domain; Region: GAF; cl15785 318167005669 PAS domain; Region: PAS_9; pfam13426 318167005670 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 318167005671 putative active site [active] 318167005672 heme pocket [chemical binding]; other site 318167005673 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167005674 metal binding site [ion binding]; metal-binding site 318167005675 active site 318167005676 I-site; other site 318167005677 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 318167005678 hypothetical protein; Provisional; Region: PRK01617 318167005679 SEC-C motif; Region: SEC-C; pfam02810 318167005680 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 318167005681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 318167005682 Smr domain; Region: Smr; cl02619 318167005683 Angiotensin-converting enzyme; Region: Peptidase_M2; pfam01401 318167005684 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 318167005685 active site 318167005686 Zn binding site [ion binding]; other site 318167005687 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 318167005688 Helix-turn-helix domains; Region: HTH; cl00088 318167005689 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 318167005690 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318167005691 active site 318167005692 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 318167005693 pyruvate kinase; Provisional; Region: PRK05826 318167005694 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 318167005695 domain interfaces; other site 318167005696 active site 318167005697 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 318167005698 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 318167005699 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 318167005700 putative active site [active] 318167005701 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 318167005702 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 318167005703 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 318167005704 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 318167005705 putative active site [active] 318167005706 Dehydratase family; Region: ILVD_EDD; cl00340 318167005707 6-phosphogluconate dehydratase; Region: edd; TIGR01196 318167005708 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 318167005709 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 318167005710 active site 318167005711 intersubunit interface [polypeptide binding]; other site 318167005712 catalytic residue [active] 318167005713 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 318167005714 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 318167005715 aspartate racemase; Region: asp_race; TIGR00035 318167005716 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 318167005717 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 318167005718 putative catalytic cysteine [active] 318167005719 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 318167005720 putative active site [active] 318167005721 metal binding site [ion binding]; metal-binding site 318167005722 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 318167005723 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 318167005724 motif II; other site 318167005725 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 318167005726 Helix-turn-helix domains; Region: HTH; cl00088 318167005727 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 318167005728 Sodium:solute symporter family; Region: SSF; cl00456 318167005729 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318167005730 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 318167005731 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 318167005732 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 318167005733 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 318167005734 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 318167005735 putative substrate binding site [chemical binding]; other site 318167005736 putative ATP binding site [chemical binding]; other site 318167005737 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 318167005738 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 318167005739 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 318167005740 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 318167005741 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 318167005742 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 318167005743 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167005744 homodimer interface [polypeptide binding]; other site 318167005745 catalytic residue [active] 318167005746 elongation factor P; Validated; Region: PRK00529 318167005747 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 318167005748 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 318167005749 RNA binding site [nucleotide binding]; other site 318167005750 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 318167005751 RNA binding site [nucleotide binding]; other site 318167005752 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 318167005753 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 318167005754 LexA regulated protein; Provisional; Region: PRK11675 318167005755 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 318167005756 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 318167005757 acyl-CoA esterase; Provisional; Region: PRK10673 318167005758 SeqA protein; Region: SeqA; cl11470 318167005759 phosphoglucomutase; Validated; Region: PRK07564 318167005760 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 318167005761 active site 318167005762 substrate binding site [chemical binding]; other site 318167005763 metal binding site [ion binding]; metal-binding site 318167005764 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 318167005765 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 318167005766 dimer interface [polypeptide binding]; other site 318167005767 active site 318167005768 heme binding site [chemical binding]; other site 318167005769 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 318167005770 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167005771 metal binding site [ion binding]; metal-binding site 318167005772 active site 318167005773 I-site; other site 318167005774 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 318167005775 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 318167005776 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 318167005777 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 318167005778 domain interface [polypeptide binding]; other site 318167005779 putative active site [active] 318167005780 catalytic site [active] 318167005781 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 318167005782 domain interface [polypeptide binding]; other site 318167005783 putative active site [active] 318167005784 catalytic site [active] 318167005785 DTW domain; Region: DTW; cl01221 318167005786 DEAD-like helicases superfamily; Region: DEXDc; smart00487 318167005787 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 318167005788 ATP binding site [chemical binding]; other site 318167005789 putative Mg++ binding site [ion binding]; other site 318167005790 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 318167005791 nucleotide binding region [chemical binding]; other site 318167005792 ATP-binding site [chemical binding]; other site 318167005793 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 318167005794 secondary substrate binding site; other site 318167005795 primary substrate binding site; other site 318167005796 inhibition loop; other site 318167005797 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167005798 metal binding site [ion binding]; metal-binding site 318167005799 active site 318167005800 I-site; other site 318167005801 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 318167005802 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167005803 CoA-ligase; Region: Ligase_CoA; cl02894 318167005804 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318167005805 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318167005806 Protein export membrane protein; Region: SecD_SecF; cl14618 318167005807 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167005808 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 318167005809 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 318167005810 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318167005811 thioredoxin reductase; Provisional; Region: PRK10262 318167005812 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167005813 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 318167005814 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 318167005815 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 318167005816 putative active site [active] 318167005817 Zn binding site [ion binding]; other site 318167005818 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 318167005819 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 318167005820 tetramer interface [polypeptide binding]; other site 318167005821 TPP-binding site [chemical binding]; other site 318167005822 heterodimer interface [polypeptide binding]; other site 318167005823 phosphorylation loop region [posttranslational modification] 318167005824 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 318167005825 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 318167005826 alpha subunit interface [polypeptide binding]; other site 318167005827 TPP binding site [chemical binding]; other site 318167005828 heterodimer interface [polypeptide binding]; other site 318167005829 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 318167005830 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 318167005831 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 318167005832 E3 interaction surface; other site 318167005833 lipoyl attachment site [posttranslational modification]; other site 318167005834 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 318167005835 E3 interaction surface; other site 318167005836 lipoyl attachment site [posttranslational modification]; other site 318167005837 e3 binding domain; Region: E3_binding; pfam02817 318167005838 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 318167005839 Quinolinate synthetase A protein; Region: NadA; cl00420 318167005840 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 318167005841 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 318167005842 dimerization interface [polypeptide binding]; other site 318167005843 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167005844 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167005845 dimer interface [polypeptide binding]; other site 318167005846 putative CheW interface [polypeptide binding]; other site 318167005847 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167005848 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 318167005849 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 318167005850 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 318167005851 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 318167005852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167005853 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 318167005854 Transcriptional regulators [Transcription]; Region: MarR; COG1846 318167005855 Helix-turn-helix domains; Region: HTH; cl00088 318167005856 Helix-turn-helix domains; Region: HTH; cl00088 318167005857 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 318167005858 BCCT family transporter; Region: BCCT; cl00569 318167005859 choline dehydrogenase; Validated; Region: PRK02106 318167005860 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167005861 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 318167005862 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318167005863 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 318167005864 NAD(P) binding site [chemical binding]; other site 318167005865 catalytic residues [active] 318167005866 transcriptional regulator BetI; Validated; Region: PRK00767 318167005867 Helix-turn-helix domains; Region: HTH; cl00088 318167005868 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 318167005869 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 318167005870 active site 318167005871 catalytic residues [active] 318167005872 DNA binding site [nucleotide binding] 318167005873 Int/Topo IB signature motif; other site 318167005874 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 318167005875 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 318167005876 non-specific DNA binding site [nucleotide binding]; other site 318167005877 salt bridge; other site 318167005878 sequence-specific DNA binding site [nucleotide binding]; other site 318167005879 Domain of unknown function (DUF955); Region: DUF955; cl01076 318167005880 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 318167005881 putative active site [active] 318167005882 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 318167005883 HsdM N-terminal domain; Region: HsdM_N; pfam12161 318167005884 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167005885 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 318167005886 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 318167005887 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 318167005888 Fic family protein [Function unknown]; Region: COG3177 318167005889 Fic/DOC family; Region: Fic; cl00960 318167005890 Helix-turn-helix domains; Region: HTH; cl00088 318167005891 non-specific DNA interactions [nucleotide binding]; other site 318167005892 DNA binding site [nucleotide binding] 318167005893 sequence specific DNA binding site [nucleotide binding]; other site 318167005894 putative cAMP binding site [chemical binding]; other site 318167005895 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 318167005896 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 318167005897 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 318167005898 ATP binding site [chemical binding]; other site 318167005899 putative Mg++ binding site [ion binding]; other site 318167005900 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 318167005901 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 318167005902 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 318167005903 active site 318167005904 Zn binding site [ion binding]; other site 318167005905 Protein of unknown function (DUF330); Region: DUF330; cl01135 318167005906 paraquat-inducible protein B; Provisional; Region: PRK10807 318167005907 mce related protein; Region: MCE; pfam02470 318167005908 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 318167005909 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 318167005910 Walker A/P-loop; other site 318167005911 ATP binding site [chemical binding]; other site 318167005912 Q-loop/lid; other site 318167005913 ABC transporter signature motif; other site 318167005914 Walker B; other site 318167005915 D-loop; other site 318167005916 H-loop/switch region; other site 318167005917 Permease; Region: Permease; cl00510 318167005918 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 318167005919 Catalytic site [active] 318167005920 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 318167005921 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 318167005922 active site 318167005923 DNA binding site [nucleotide binding] 318167005924 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 318167005925 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 318167005926 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 318167005927 Protein of unknown function, DUF; Region: DUF411; cl01142 318167005928 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 318167005929 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 318167005930 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 318167005931 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 318167005932 Bacterial Ig-like domain; Region: Big_5; cl01012 318167005933 Copper resistance protein D; Region: CopD; cl00563 318167005934 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 318167005935 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 318167005936 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 318167005937 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 318167005938 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 318167005939 Walker A motif; other site 318167005940 ATP binding site [chemical binding]; other site 318167005941 Walker B motif; other site 318167005942 arginine finger; other site 318167005943 Helix-turn-helix domains; Region: HTH; cl00088 318167005944 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 318167005945 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318167005946 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 318167005947 active site residue [active] 318167005948 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 318167005949 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318167005950 peroxiredoxin; Provisional; Region: PRK13189 318167005951 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 318167005952 dimer interface [polypeptide binding]; other site 318167005953 decamer (pentamer of dimers) interface [polypeptide binding]; other site 318167005954 catalytic triad [active] 318167005955 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167005956 Helix-turn-helix domains; Region: HTH; cl00088 318167005957 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 318167005958 substrate binding pocket [chemical binding]; other site 318167005959 dimerization interface [polypeptide binding]; other site 318167005960 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 318167005961 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 318167005962 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 318167005963 FeS/SAM binding site; other site 318167005964 hypothetical protein; Provisional; Region: PRK10977 318167005965 Glycine radical; Region: Gly_radical; cl12026 318167005966 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 318167005967 putative active site [active] 318167005968 heme pocket [chemical binding]; other site 318167005969 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167005970 metal binding site [ion binding]; metal-binding site 318167005971 active site 318167005972 I-site; other site 318167005973 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167005974 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 318167005975 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 318167005976 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318167005977 catalytic residue [active] 318167005978 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 318167005979 putative peptidoglycan binding site; other site 318167005980 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 318167005981 putative peptidoglycan binding site; other site 318167005982 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 318167005983 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 318167005984 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167005985 active site 318167005986 phosphorylation site [posttranslational modification] 318167005987 intermolecular recognition site; other site 318167005988 dimerization interface [polypeptide binding]; other site 318167005989 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 318167005990 DNA binding site [nucleotide binding] 318167005991 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 318167005992 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 318167005993 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 318167005994 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 318167005995 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 318167005996 ATP binding site [chemical binding]; other site 318167005997 Mg2+ binding site [ion binding]; other site 318167005998 G-X-G motif; other site 318167005999 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167006000 active site 318167006001 phosphorylation site [posttranslational modification] 318167006002 intermolecular recognition site; other site 318167006003 dimerization interface [polypeptide binding]; other site 318167006004 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 318167006005 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 318167006006 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 318167006007 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 318167006008 molybdopterin cofactor binding site [chemical binding]; other site 318167006009 substrate binding site [chemical binding]; other site 318167006010 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 318167006011 molybdopterin cofactor binding site; other site 318167006012 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 318167006013 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 318167006014 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 318167006015 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167006016 active site 318167006017 phosphorylation site [posttranslational modification] 318167006018 intermolecular recognition site; other site 318167006019 dimerization interface [polypeptide binding]; other site 318167006020 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 318167006021 DNA binding residues [nucleotide binding] 318167006022 dimerization interface [polypeptide binding]; other site 318167006023 NMT1-like family; Region: NMT1_2; cl15260 318167006024 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 318167006025 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318167006026 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 318167006027 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 318167006028 ATP binding site [chemical binding]; other site 318167006029 Mg2+ binding site [ion binding]; other site 318167006030 G-X-G motif; other site 318167006031 thiosulfate reductase PhsA; Provisional; Region: PRK15488 318167006032 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 318167006033 putative [Fe4-S4] binding site [ion binding]; other site 318167006034 putative molybdopterin cofactor binding site [chemical binding]; other site 318167006035 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 318167006036 putative molybdopterin cofactor binding site; other site 318167006037 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 318167006038 4Fe-4S binding domain; Region: Fer4; cl02805 318167006039 Polysulphide reductase, NrfD; Region: NrfD; cl01295 318167006040 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 318167006041 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 318167006042 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 318167006043 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 318167006044 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 318167006045 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 318167006046 Int/Topo IB signature motif; other site 318167006047 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 318167006048 Low-spin heme binding site [chemical binding]; other site 318167006049 Putative water exit pathway; other site 318167006050 Binuclear center (active site) [active] 318167006051 Putative proton exit pathway; other site 318167006052 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 318167006053 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 318167006054 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 318167006055 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 318167006056 Cytochrome c; Region: Cytochrom_C; cl11414 318167006057 Cytochrome c; Region: Cytochrom_C; cl11414 318167006058 FixH; Region: FixH; cl01254 318167006059 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 318167006060 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 318167006061 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 318167006062 metal-binding site [ion binding] 318167006063 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 318167006064 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318167006065 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 318167006066 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 318167006067 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 318167006068 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 318167006069 ligand binding site [chemical binding]; other site 318167006070 flexible hinge region; other site 318167006071 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 318167006072 putative switch regulator; other site 318167006073 non-specific DNA interactions [nucleotide binding]; other site 318167006074 DNA binding site [nucleotide binding] 318167006075 sequence specific DNA binding site [nucleotide binding]; other site 318167006076 putative cAMP binding site [chemical binding]; other site 318167006077 universal stress protein UspE; Provisional; Region: PRK11175 318167006078 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 318167006079 Ligand Binding Site [chemical binding]; other site 318167006080 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 318167006081 Ligand Binding Site [chemical binding]; other site 318167006082 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 318167006083 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 318167006084 Ligand Binding Site [chemical binding]; other site 318167006085 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 318167006086 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 318167006087 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 318167006088 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 318167006089 phosphate binding site [ion binding]; other site 318167006090 putative substrate binding pocket [chemical binding]; other site 318167006091 dimer interface [polypeptide binding]; other site 318167006092 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 318167006093 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 318167006094 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167006095 homodimer interface [polypeptide binding]; other site 318167006096 catalytic residue [active] 318167006097 ribosomal protein L20; Region: rpl20; CHL00068 318167006098 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 318167006099 23S rRNA binding site [nucleotide binding]; other site 318167006100 L21 binding site [polypeptide binding]; other site 318167006101 L13 binding site [polypeptide binding]; other site 318167006102 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 318167006103 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 318167006104 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 318167006105 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 318167006106 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 318167006107 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 318167006108 active site 318167006109 dimer interface [polypeptide binding]; other site 318167006110 motif 1; other site 318167006111 motif 2; other site 318167006112 motif 3; other site 318167006113 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 318167006114 anticodon binding site; other site 318167006115 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 318167006116 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 318167006117 Lumazine binding domain; Region: Lum_binding; pfam00677 318167006118 Lumazine binding domain; Region: Lum_binding; pfam00677 318167006119 multidrug efflux protein; Reviewed; Region: PRK01766 318167006120 MatE; Region: MatE; cl10513 318167006121 MatE; Region: MatE; cl10513 318167006122 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318167006123 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 318167006124 NAD(P) binding site [chemical binding]; other site 318167006125 catalytic residues [active] 318167006126 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 318167006127 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 318167006128 dimer interface [polypeptide binding]; other site 318167006129 active site 318167006130 metal binding site [ion binding]; metal-binding site 318167006131 Flavin Reductases; Region: FlaRed; cl00801 318167006132 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 318167006133 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 318167006134 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 318167006135 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318167006136 active site 318167006137 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 318167006138 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318167006139 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 318167006140 N-terminal plug; other site 318167006141 ligand-binding site [chemical binding]; other site 318167006142 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 318167006143 putative FMN binding site [chemical binding]; other site 318167006144 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167006145 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 318167006146 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167006147 bile acid transporter; Region: bass; TIGR00841 318167006148 Membrane transport protein; Region: Mem_trans; cl09117 318167006149 enoyl-CoA hydratase; Provisional; Region: PRK07509 318167006150 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 318167006151 substrate binding site [chemical binding]; other site 318167006152 oxyanion hole (OAH) forming residues; other site 318167006153 trimer interface [polypeptide binding]; other site 318167006154 enoyl-CoA hydratase; Provisional; Region: PRK06142 318167006155 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 318167006156 substrate binding site [chemical binding]; other site 318167006157 oxyanion hole (OAH) forming residues; other site 318167006158 trimer interface [polypeptide binding]; other site 318167006159 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167006160 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 318167006161 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 318167006162 putative active site [active] 318167006163 Helix-turn-helix domains; Region: HTH; cl00088 318167006164 putative transposase OrfB; Reviewed; Region: PHA02517 318167006165 HTH-like domain; Region: HTH_21; pfam13276 318167006166 Integrase core domain; Region: rve; cl01316 318167006167 Integrase core domain; Region: rve_3; cl15866 318167006168 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 318167006169 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 318167006170 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 318167006171 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 318167006172 Walker A motif; other site 318167006173 ATP binding site [chemical binding]; other site 318167006174 Walker B motif; other site 318167006175 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 318167006176 active site 318167006177 catalytic triad [active] 318167006178 oxyanion hole [active] 318167006179 haloalkane dehalogenase; Provisional; Region: PRK00870 318167006180 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 318167006181 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 318167006182 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 318167006183 Walker A motif; other site 318167006184 ATP binding site [chemical binding]; other site 318167006185 Walker B motif; other site 318167006186 arginine finger; other site 318167006187 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 318167006188 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 318167006189 putative [Fe4-S4] binding site [ion binding]; other site 318167006190 putative molybdopterin cofactor binding site [chemical binding]; other site 318167006191 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 318167006192 putative molybdopterin cofactor binding site; other site 318167006193 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 318167006194 Prostaglandin dehydrogenases; Region: PGDH; cd05288 318167006195 NAD(P) binding site [chemical binding]; other site 318167006196 substrate binding site [chemical binding]; other site 318167006197 dimer interface [polypeptide binding]; other site 318167006198 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 318167006199 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 318167006200 AMP-binding enzyme; Region: AMP-binding; cl15778 318167006201 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167006202 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 318167006203 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 318167006204 dimer interface [polypeptide binding]; other site 318167006205 active site 318167006206 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 318167006207 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 318167006208 NAD binding site [chemical binding]; other site 318167006209 homodimer interface [polypeptide binding]; other site 318167006210 active site 318167006211 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 318167006212 putative active site [active] 318167006213 putative catalytic site [active] 318167006214 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 318167006215 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 318167006216 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318167006217 active site 318167006218 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 318167006219 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 318167006220 classical (c) SDRs; Region: SDR_c; cd05233 318167006221 NAD(P) binding site [chemical binding]; other site 318167006222 active site 318167006223 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 318167006224 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 318167006225 putative active site [active] 318167006226 putative substrate binding site [chemical binding]; other site 318167006227 ATP binding site [chemical binding]; other site 318167006228 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 318167006229 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318167006230 active site 318167006231 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 318167006232 putative active site [active] 318167006233 putative FMN binding site [chemical binding]; other site 318167006234 putative substrate binding site [chemical binding]; other site 318167006235 putative catalytic residue [active] 318167006236 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318167006237 classical (c) SDRs; Region: SDR_c; cd05233 318167006238 NAD(P) binding site [chemical binding]; other site 318167006239 active site 318167006240 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 318167006241 catalytic core [active] 318167006242 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 318167006243 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 318167006244 Helix-turn-helix domains; Region: HTH; cl00088 318167006245 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 318167006246 substrate binding pocket [chemical binding]; other site 318167006247 dimerization interface [polypeptide binding]; other site 318167006248 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 318167006249 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318167006250 substrate binding pocket [chemical binding]; other site 318167006251 membrane-bound complex binding site; other site 318167006252 hinge residues; other site 318167006253 PAS domain S-box; Region: sensory_box; TIGR00229 318167006254 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167006255 metal binding site [ion binding]; metal-binding site 318167006256 active site 318167006257 I-site; other site 318167006258 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 318167006259 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 318167006260 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 318167006261 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 318167006262 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 318167006263 ABC transporter; Region: ABC_tran_2; pfam12848 318167006264 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 318167006265 Peptidase family U32; Region: Peptidase_U32; cl03113 318167006266 Collagenase; Region: DUF3656; pfam12392 318167006267 Peptidase family U32; Region: Peptidase_U32; cl03113 318167006268 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 318167006269 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 318167006270 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 318167006271 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 318167006272 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167006273 Flagellin N-methylase; Region: FliB; cl00497 318167006274 Peptidase M15; Region: Peptidase_M15_3; cl01194 318167006275 DNA phosphorothioation-associated putative methyltransferase; Region: dnd_rel_methyl; TIGR04096 318167006276 DNA phosphorothioation-associated putative methyltransferase; Region: dnd_rel_methyl; TIGR04096 318167006277 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167006278 dnd system-associated protein 4; Region: dnd_assoc_4; TIGR04062 318167006279 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 318167006280 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167006281 Walker A/P-loop; other site 318167006282 ATP binding site [chemical binding]; other site 318167006283 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_a; cd09179 318167006284 PLD-like domain; Region: PLDc_2; pfam13091 318167006285 putative active site [active] 318167006286 catalytic site [active] 318167006287 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 318167006288 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 318167006289 ATP binding site [chemical binding]; other site 318167006290 putative Mg++ binding site [ion binding]; other site 318167006291 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 318167006292 nucleotide binding region [chemical binding]; other site 318167006293 ATP-binding site [chemical binding]; other site 318167006294 Protein of unknown function DUF262; Region: DUF262; cl14890 318167006295 Protein of unknown function (DUF4007); Region: DUF4007; pfam13182 318167006296 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 318167006297 Active Sites [active] 318167006298 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 318167006299 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 318167006300 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318167006301 catalytic residue [active] 318167006302 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 318167006303 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 318167006304 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 318167006305 active site 318167006306 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 318167006307 Domain of unknown function DUF302; Region: DUF302; cl01364 318167006308 short chain dehydrogenase; Provisional; Region: PRK06123 318167006309 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 318167006310 NADP binding site [chemical binding]; other site 318167006311 homodimer interface [polypeptide binding]; other site 318167006312 active site 318167006313 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167006314 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 318167006315 dimer interface [polypeptide binding]; other site 318167006316 active site 318167006317 metal binding site [ion binding]; metal-binding site 318167006318 glutathione binding site [chemical binding]; other site 318167006319 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 318167006320 FMN binding site [chemical binding]; other site 318167006321 active site 318167006322 substrate binding site [chemical binding]; other site 318167006323 catalytic residue [active] 318167006324 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 318167006325 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318167006326 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 318167006327 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 318167006328 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 318167006329 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 318167006330 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 318167006331 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 318167006332 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 318167006333 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 318167006334 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 318167006335 putative substrate-binding site; other site 318167006336 nickel binding site [ion binding]; other site 318167006337 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 318167006338 Acylphosphatase; Region: Acylphosphatase; cl00551 318167006339 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 318167006340 HypF finger; Region: zf-HYPF; pfam07503 318167006341 HypF finger; Region: zf-HYPF; pfam07503 318167006342 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 318167006343 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167006344 HupF/HypC family; Region: HupF_HypC; cl00394 318167006345 Hydrogenase formation hypA family; Region: HypD; cl12072 318167006346 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 318167006347 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 318167006348 dimerization interface [polypeptide binding]; other site 318167006349 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 318167006350 ATP binding site [chemical binding]; other site 318167006351 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 318167006352 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 318167006353 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 318167006354 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 318167006355 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318167006356 active site 318167006357 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 318167006358 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 318167006359 short chain dehydrogenase; Provisional; Region: PRK07576 318167006360 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 318167006361 NAD(P) binding site [chemical binding]; other site 318167006362 substrate binding site [chemical binding]; other site 318167006363 homotetramer interface [polypeptide binding]; other site 318167006364 active site 318167006365 homodimer interface [polypeptide binding]; other site 318167006366 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 318167006367 active site 318167006368 dimer interface [polypeptide binding]; other site 318167006369 tetratricopeptide repeat protein; Provisional; Region: PRK11788 318167006370 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 318167006371 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 318167006372 IHF dimer interface [polypeptide binding]; other site 318167006373 IHF - DNA interface [nucleotide binding]; other site 318167006374 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 318167006375 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 318167006376 RNA binding site [nucleotide binding]; other site 318167006377 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 318167006378 RNA binding site [nucleotide binding]; other site 318167006379 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 318167006380 RNA binding site [nucleotide binding]; other site 318167006381 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 318167006382 RNA binding site [nucleotide binding]; other site 318167006383 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 318167006384 RNA binding site [nucleotide binding]; other site 318167006385 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 318167006386 RNA binding site [nucleotide binding]; other site 318167006387 cytidylate kinase; Provisional; Region: cmk; PRK00023 318167006388 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 318167006389 CMP-binding site; other site 318167006390 The sites determining sugar specificity; other site 318167006391 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 318167006392 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 318167006393 hinge; other site 318167006394 active site 318167006395 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 318167006396 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 318167006397 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167006398 homodimer interface [polypeptide binding]; other site 318167006399 catalytic residue [active] 318167006400 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 318167006401 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 318167006402 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 318167006403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167006404 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 318167006405 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318167006406 catalytic residue [active] 318167006407 DNA gyrase subunit A; Validated; Region: PRK05560 318167006408 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 318167006409 CAP-like domain; other site 318167006410 active site 318167006411 primary dimer interface [polypeptide binding]; other site 318167006412 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318167006413 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318167006414 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318167006415 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318167006416 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318167006417 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318167006418 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 318167006419 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 318167006420 S-adenosylmethionine binding site [chemical binding]; other site 318167006421 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 318167006422 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318167006423 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 318167006424 motif II; other site 318167006425 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 318167006426 ATP cone domain; Region: ATP-cone; pfam03477 318167006427 Class I ribonucleotide reductase; Region: RNR_I; cd01679 318167006428 active site 318167006429 dimer interface [polypeptide binding]; other site 318167006430 catalytic residues [active] 318167006431 effector binding site; other site 318167006432 R2 peptide binding site; other site 318167006433 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 318167006434 dimer interface [polypeptide binding]; other site 318167006435 putative radical transfer pathway; other site 318167006436 diiron center [ion binding]; other site 318167006437 tyrosyl radical; other site 318167006438 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 318167006439 catalytic loop [active] 318167006440 iron binding site [ion binding]; other site 318167006441 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 318167006442 Surface antigen; Region: Bac_surface_Ag; cl03097 318167006443 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 318167006444 ATP binding site [chemical binding]; other site 318167006445 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; cl08302 318167006446 EF-hand domain pair; Region: EF_hand_5; pfam13499 318167006447 Ca2+ binding site [ion binding]; other site 318167006448 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 318167006449 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 318167006450 motif II; other site 318167006451 putative S-transferase; Provisional; Region: PRK11752 318167006452 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 318167006453 C-terminal domain interface [polypeptide binding]; other site 318167006454 GSH binding site (G-site) [chemical binding]; other site 318167006455 dimer interface [polypeptide binding]; other site 318167006456 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 318167006457 dimer interface [polypeptide binding]; other site 318167006458 N-terminal domain interface [polypeptide binding]; other site 318167006459 active site 318167006460 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 318167006461 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 318167006462 active site 318167006463 FMN binding site [chemical binding]; other site 318167006464 2,4-decadienoyl-CoA binding site; other site 318167006465 catalytic residue [active] 318167006466 4Fe-4S cluster binding site [ion binding]; other site 318167006467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167006468 protease 4; Provisional; Region: PRK10949 318167006469 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 318167006470 tandem repeat interface [polypeptide binding]; other site 318167006471 oligomer interface [polypeptide binding]; other site 318167006472 active site residues [active] 318167006473 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 318167006474 tandem repeat interface [polypeptide binding]; other site 318167006475 oligomer interface [polypeptide binding]; other site 318167006476 active site residues [active] 318167006477 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 318167006478 active site 318167006479 homodimer interface [polypeptide binding]; other site 318167006480 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 318167006481 Double zinc ribbon; Region: DZR; pfam12773 318167006482 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 318167006483 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 318167006484 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 318167006485 putative active site [active] 318167006486 Zn binding site [ion binding]; other site 318167006487 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318167006488 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167006489 active site 318167006490 phosphorylation site [posttranslational modification] 318167006491 intermolecular recognition site; other site 318167006492 dimerization interface [polypeptide binding]; other site 318167006493 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 318167006494 DNA binding site [nucleotide binding] 318167006495 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 318167006496 lipid kinase; Reviewed; Region: PRK13054 318167006497 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 318167006498 helicase 45; Provisional; Region: PTZ00424 318167006499 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 318167006500 ATP binding site [chemical binding]; other site 318167006501 Mg++ binding site [ion binding]; other site 318167006502 motif III; other site 318167006503 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 318167006504 nucleotide binding region [chemical binding]; other site 318167006505 MarC family integral membrane protein; Region: MarC; cl00919 318167006506 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 318167006507 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318167006508 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 318167006509 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 318167006510 Fumarase C-terminus; Region: Fumerase_C; cl00795 318167006511 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 318167006512 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 318167006513 chorismate binding enzyme; Region: Chorismate_bind; cl10555 318167006514 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 318167006515 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 318167006516 C-terminal domain interface [polypeptide binding]; other site 318167006517 GSH binding site (G-site) [chemical binding]; other site 318167006518 dimer interface [polypeptide binding]; other site 318167006519 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318167006520 N-terminal domain interface [polypeptide binding]; other site 318167006521 dimer interface [polypeptide binding]; other site 318167006522 substrate binding pocket (H-site) [chemical binding]; other site 318167006523 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 318167006524 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 318167006525 active site 318167006526 substrate binding site [chemical binding]; other site 318167006527 metal binding site [ion binding]; metal-binding site 318167006528 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 318167006529 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 318167006530 N-terminal plug; other site 318167006531 ligand-binding site [chemical binding]; other site 318167006532 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 318167006533 glycogen synthase; Provisional; Region: glgA; PRK00654 318167006534 ADP-binding pocket [chemical binding]; other site 318167006535 homodimer interface [polypeptide binding]; other site 318167006536 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 318167006537 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 318167006538 ligand binding site; other site 318167006539 oligomer interface; other site 318167006540 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 318167006541 dimer interface [polypeptide binding]; other site 318167006542 N-terminal domain interface [polypeptide binding]; other site 318167006543 sulfate 1 binding site; other site 318167006544 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 318167006545 homodimer interface [polypeptide binding]; other site 318167006546 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 318167006547 active site pocket [active] 318167006548 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 318167006549 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 318167006550 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 318167006551 glycogen branching enzyme; Provisional; Region: PRK05402 318167006552 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 318167006553 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 318167006554 active site 318167006555 catalytic site [active] 318167006556 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 318167006557 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 318167006558 putative active site [active] 318167006559 putative CoA binding site [chemical binding]; other site 318167006560 nudix motif; other site 318167006561 metal binding site [ion binding]; metal-binding site 318167006562 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 318167006563 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 318167006564 putative dimer interface [polypeptide binding]; other site 318167006565 putative anticodon binding site; other site 318167006566 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 318167006567 homodimer interface [polypeptide binding]; other site 318167006568 motif 1; other site 318167006569 motif 2; other site 318167006570 active site 318167006571 motif 3; other site 318167006572 excinuclease ABC subunit B; Provisional; Region: PRK05298 318167006573 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 318167006574 ATP binding site [chemical binding]; other site 318167006575 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 318167006576 nucleotide binding region [chemical binding]; other site 318167006577 ATP-binding site [chemical binding]; other site 318167006578 Ultra-violet resistance protein B; Region: UvrB; pfam12344 318167006579 UvrB/uvrC motif; Region: UVR; pfam02151 318167006580 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167006581 active site 318167006582 I-site; other site 318167006583 metal binding site [ion binding]; metal-binding site 318167006584 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 318167006585 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 318167006586 electron transport complex protein RnfB; Provisional; Region: PRK05113 318167006587 Putative Fe-S cluster; Region: FeS; pfam04060 318167006588 4Fe-4S binding domain; Region: Fer4; cl02805 318167006589 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 318167006590 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 318167006591 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 318167006592 SLBB domain; Region: SLBB; pfam10531 318167006593 4Fe-4S binding domain; Region: Fer4; cl02805 318167006594 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 318167006595 FMN-binding domain; Region: FMN_bind; cl01081 318167006596 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 318167006597 endonuclease III; Provisional; Region: PRK10702 318167006598 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 318167006599 minor groove reading motif; other site 318167006600 helix-hairpin-helix signature motif; other site 318167006601 substrate binding pocket [chemical binding]; other site 318167006602 active site 318167006603 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 318167006604 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167006605 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 318167006606 dimer interface [polypeptide binding]; other site 318167006607 active site 318167006608 metal binding site [ion binding]; metal-binding site 318167006609 glutathione binding site [chemical binding]; other site 318167006610 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 318167006611 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 318167006612 Walker A motif; other site 318167006613 ATP binding site [chemical binding]; other site 318167006614 Walker B motif; other site 318167006615 arginine finger; other site 318167006616 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 318167006617 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 318167006618 RuvA N terminal domain; Region: RuvA_N; pfam01330 318167006619 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 318167006620 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 318167006621 active site 318167006622 putative DNA-binding cleft [nucleotide binding]; other site 318167006623 dimer interface [polypeptide binding]; other site 318167006624 Transcriptional regulator; Region: Transcrip_reg; cl00361 318167006625 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 318167006626 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 318167006627 dimer interface [polypeptide binding]; other site 318167006628 anticodon binding site; other site 318167006629 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 318167006630 homodimer interface [polypeptide binding]; other site 318167006631 motif 1; other site 318167006632 active site 318167006633 motif 2; other site 318167006634 GAD domain; Region: GAD; pfam02938 318167006635 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 318167006636 active site 318167006637 motif 3; other site 318167006638 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 318167006639 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 318167006640 substrate binding pocket [chemical binding]; other site 318167006641 membrane-bound complex binding site; other site 318167006642 hinge residues; other site 318167006643 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 318167006644 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 318167006645 substrate binding pocket [chemical binding]; other site 318167006646 membrane-bound complex binding site; other site 318167006647 hinge residues; other site 318167006648 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 318167006649 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 318167006650 substrate binding pocket [chemical binding]; other site 318167006651 membrane-bound complex binding site; other site 318167006652 hinge residues; other site 318167006653 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167006654 metal binding site [ion binding]; metal-binding site 318167006655 active site 318167006656 I-site; other site 318167006657 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 318167006658 S-adenosylmethionine binding site [chemical binding]; other site 318167006659 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 318167006660 S-adenosylmethionine binding site [chemical binding]; other site 318167006661 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 318167006662 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318167006663 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 318167006664 Domain of unknown function (DUF3541); Region: DUF3541; pfam12060 318167006665 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167006666 Helix-turn-helix domains; Region: HTH; cl00088 318167006667 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 318167006668 dimerization interface [polypeptide binding]; other site 318167006669 SprA-related family; Region: SprA-related; pfam12118 318167006670 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 318167006671 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 318167006672 FeS/SAM binding site; other site 318167006673 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 318167006674 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 318167006675 ThiS interaction site; other site 318167006676 putative active site [active] 318167006677 tetramer interface [polypeptide binding]; other site 318167006678 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 318167006679 thiS-thiF/thiG interaction site; other site 318167006680 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 318167006681 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 318167006682 ATP binding site [chemical binding]; other site 318167006683 substrate interface [chemical binding]; other site 318167006684 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 318167006685 dimer interface [polypeptide binding]; other site 318167006686 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 318167006687 substrate binding site [chemical binding]; other site 318167006688 ATP binding site [chemical binding]; other site 318167006689 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 318167006690 thiamine phosphate binding site [chemical binding]; other site 318167006691 active site 318167006692 pyrophosphate binding site [ion binding]; other site 318167006693 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 318167006694 ThiC family; Region: ThiC; cl08031 318167006695 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 318167006696 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 318167006697 TIGR03503 family protein; Region: TIGR03503 318167006698 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 318167006699 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 318167006700 active site 318167006701 catalytic site [active] 318167006702 substrate binding site [chemical binding]; other site 318167006703 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 318167006704 RNA/DNA hybrid binding site [nucleotide binding]; other site 318167006705 active site 318167006706 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 318167006707 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167006708 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318167006709 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 318167006710 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 318167006711 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 318167006712 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318167006713 catalytic residue [active] 318167006714 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 318167006715 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 318167006716 putative peptidoglycan binding site; other site 318167006717 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 318167006718 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 318167006719 putative peptidoglycan binding site; other site 318167006720 AsmA family; Region: AsmA; pfam05170 318167006721 AsmA-like C-terminal region; Region: AsmA_2; cl15864 318167006722 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 318167006723 Cache domain; Region: Cache_2; cl07034 318167006724 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 318167006725 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167006726 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167006727 dimer interface [polypeptide binding]; other site 318167006728 putative CheW interface [polypeptide binding]; other site 318167006729 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 318167006730 Helix-turn-helix domains; Region: HTH; cl00088 318167006731 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 318167006732 substrate binding pocket [chemical binding]; other site 318167006733 dimerization interface [polypeptide binding]; other site 318167006734 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 318167006735 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318167006736 active site 318167006737 short chain dehydrogenase; Provisional; Region: PRK05650 318167006738 classical (c) SDRs; Region: SDR_c; cd05233 318167006739 NAD(P) binding site [chemical binding]; other site 318167006740 active site 318167006741 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 318167006742 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 318167006743 putative active site [active] 318167006744 putative substrate binding site [chemical binding]; other site 318167006745 ATP binding site [chemical binding]; other site 318167006746 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167006747 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 318167006748 catalytic core [active] 318167006749 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 318167006750 short chain dehydrogenase; Provisional; Region: PRK08251 318167006751 classical (c) SDR, subgroup 6; Region: SDR_c6; cd05350 318167006752 putative NAD(P) binding site [chemical binding]; other site 318167006753 active site 318167006754 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 318167006755 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 318167006756 quinone interaction residues [chemical binding]; other site 318167006757 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 318167006758 active site 318167006759 catalytic residues [active] 318167006760 FMN binding site [chemical binding]; other site 318167006761 substrate binding site [chemical binding]; other site 318167006762 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 318167006763 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 318167006764 Protein export membrane protein; Region: SecD_SecF; cl14618 318167006765 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 318167006766 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 318167006767 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 318167006768 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 318167006769 aminopeptidase N; Provisional; Region: pepN; PRK14015 318167006770 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 318167006771 active site 318167006772 Zn binding site [ion binding]; other site 318167006773 carboxy-terminal protease; Provisional; Region: PRK11186 318167006774 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 318167006775 protein binding site [polypeptide binding]; other site 318167006776 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 318167006777 Catalytic dyad [active] 318167006778 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 318167006779 ProP expression regulator; Provisional; Region: PRK04950 318167006780 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 318167006781 GAF domain; Region: GAF; cl15785 318167006782 YebG protein; Region: YebG; cl01217 318167006783 Paraquat-inducible protein A; Region: PqiA; pfam04403 318167006784 Paraquat-inducible protein A; Region: PqiA; pfam04403 318167006785 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 318167006786 mce related protein; Region: MCE; pfam02470 318167006787 mce related protein; Region: MCE; pfam02470 318167006788 mce related protein; Region: MCE; pfam02470 318167006789 mce related protein; Region: MCE; pfam02470 318167006790 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 318167006791 mce related protein; Region: MCE; pfam02470 318167006792 mce related protein; Region: MCE; pfam02470 318167006793 Nucleoside recognition; Region: Gate; cl00486 318167006794 Nucleoside recognition; Region: Gate; cl00486 318167006795 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 318167006796 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 318167006797 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; cl01283 318167006798 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 318167006799 active site 318167006800 PilZ domain; Region: PilZ; cl01260 318167006801 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 318167006802 thymidylate kinase; Validated; Region: tmk; PRK00698 318167006803 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 318167006804 TMP-binding site; other site 318167006805 ATP-binding site [chemical binding]; other site 318167006806 YceG-like family; Region: YceG; pfam02618 318167006807 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 318167006808 dimerization interface [polypeptide binding]; other site 318167006809 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 318167006810 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167006811 catalytic residue [active] 318167006812 2'-deoxycytidine 5'-triphosphate deaminase (DCD); Region: DCD; pfam06559 318167006813 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 318167006814 trimer interface [polypeptide binding]; other site 318167006815 active site 318167006816 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 318167006817 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 318167006818 ATP-binding site [chemical binding]; other site 318167006819 Sugar specificity; other site 318167006820 Pyrimidine base specificity; other site 318167006821 antiporter inner membrane protein; Provisional; Region: PRK11670 318167006822 Domain of unknown function DUF59; Region: DUF59; cl00941 318167006823 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 318167006824 Walker A motif; other site 318167006825 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 318167006826 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 318167006827 active site 318167006828 HIGH motif; other site 318167006829 KMSKS motif; other site 318167006830 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 318167006831 tRNA binding surface [nucleotide binding]; other site 318167006832 anticodon binding site; other site 318167006833 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 318167006834 dimer interface [polypeptide binding]; other site 318167006835 putative tRNA-binding site [nucleotide binding]; other site 318167006836 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 318167006837 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 318167006838 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167006839 Uncharacterized conserved protein [Function unknown]; Region: COG0327 318167006840 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 318167006841 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 318167006842 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318167006843 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 318167006844 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 318167006845 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318167006846 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 318167006847 rRNA binding site [nucleotide binding]; other site 318167006848 predicted 30S ribosome binding site; other site 318167006849 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 318167006850 Clp amino terminal domain; Region: Clp_N; pfam02861 318167006851 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 318167006852 Walker A motif; other site 318167006853 ATP binding site [chemical binding]; other site 318167006854 Walker B motif; other site 318167006855 arginine finger; other site 318167006856 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 318167006857 Walker A motif; other site 318167006858 ATP binding site [chemical binding]; other site 318167006859 Walker B motif; other site 318167006860 arginine finger; other site 318167006861 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 318167006862 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 318167006863 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 318167006864 DNA-binding site [nucleotide binding]; DNA binding site 318167006865 RNA-binding motif; other site 318167006866 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 318167006867 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 318167006868 pseudouridine synthase; Region: TIGR00093 318167006869 active site 318167006870 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 318167006871 nudix motif; other site 318167006872 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 318167006873 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 318167006874 Protein of unknown function (DUF489); Region: DUF489; cl01097 318167006875 adenylosuccinate lyase; Provisional; Region: PRK09285 318167006876 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 318167006877 tetramer interface [polypeptide binding]; other site 318167006878 active site 318167006879 Cupin superfamily protein; Region: Cupin_4; pfam08007 318167006880 Cupin domain; Region: Cupin_2; cl09118 318167006881 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 318167006882 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 318167006883 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 318167006884 NAD binding site [chemical binding]; other site 318167006885 Phe binding site; other site 318167006886 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 318167006887 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 318167006888 putative active site [active] 318167006889 putative metal binding site [ion binding]; other site 318167006890 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318167006891 putative acyl-acceptor binding pocket; other site 318167006892 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318167006893 FOG: CBS domain [General function prediction only]; Region: COG0517 318167006894 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_24; cd04637 318167006895 Gram-negative bacterial tonB protein; Region: TonB; cl10048 318167006896 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 318167006897 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 318167006898 FOG: CBS domain [General function prediction only]; Region: COG0517 318167006899 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 318167006900 transcriptional regulator; Provisional; Region: PRK10632 318167006901 Helix-turn-helix domains; Region: HTH; cl00088 318167006902 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 318167006903 dimerization interface [polypeptide binding]; other site 318167006904 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 318167006905 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 318167006906 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167006907 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 318167006908 nudix motif; other site 318167006909 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 318167006910 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 318167006911 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 318167006912 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12507 318167006913 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 318167006914 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 318167006915 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 318167006916 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 318167006917 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 318167006918 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 318167006919 hydrogenase 4 subunit D; Validated; Region: PRK06525 318167006920 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 318167006921 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 318167006922 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 318167006923 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 318167006924 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 318167006925 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 318167006926 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 318167006927 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318167006928 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 318167006929 CCC1-related family of proteins; Region: CCC1_like; cl00278 318167006930 Uncharacterized ArCR, COG1888; Region: DUF211; cl00820 318167006931 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 318167006932 Helix-turn-helix domains; Region: HTH; cl00088 318167006933 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 318167006934 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 318167006935 FAD binding domain; Region: FAD_binding_4; pfam01565 318167006936 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 318167006937 phosphoenolpyruvate synthase; Validated; Region: PRK06464 318167006938 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 318167006939 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 318167006940 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 318167006941 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 318167006942 NeuB family; Region: NeuB; cl00496 318167006943 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 318167006944 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318167006945 Zn2+ binding site [ion binding]; other site 318167006946 Mg2+ binding site [ion binding]; other site 318167006947 Protein of unknown function (DUF541); Region: SIMPL; cl01077 318167006948 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 318167006949 catalytic core [active] 318167006950 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 318167006951 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 318167006952 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318167006953 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167006954 active site 318167006955 phosphorylation site [posttranslational modification] 318167006956 intermolecular recognition site; other site 318167006957 dimerization interface [polypeptide binding]; other site 318167006958 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 318167006959 DNA binding residues [nucleotide binding] 318167006960 dimerization interface [polypeptide binding]; other site 318167006961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167006962 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 318167006963 active site 318167006964 phosphate binding residues; other site 318167006965 catalytic residues [active] 318167006966 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 318167006967 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 318167006968 active site 318167006969 metal binding site [ion binding]; metal-binding site 318167006970 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 318167006971 Predicted esterase [General function prediction only]; Region: COG0400 318167006972 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 318167006973 Protein of unknown function (DUF3389); Region: DUF3389; pfam11869 318167006974 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 318167006975 Transglycosylase SLT domain; Region: SLT_2; pfam13406 318167006976 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 318167006977 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318167006978 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 318167006979 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 318167006980 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 318167006981 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167006982 active site 318167006983 phosphorylation site [posttranslational modification] 318167006984 intermolecular recognition site; other site 318167006985 dimerization interface [polypeptide binding]; other site 318167006986 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 318167006987 RNA polymerase sigma factor; Provisional; Region: PRK12531 318167006988 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167006989 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 318167006990 DNA binding residues [nucleotide binding] 318167006991 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 318167006992 Cupin domain; Region: Cupin_2; cl09118 318167006993 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 318167006994 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 318167006995 hypothetical protein; Provisional; Region: PRK11770 318167006996 Domain of unknown function (DUF307); Region: DUF307; pfam03733 318167006997 Domain of unknown function (DUF307); Region: DUF307; pfam03733 318167006998 EVE domain; Region: EVE; cl00728 318167006999 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 318167007000 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167007001 Helix-turn-helix domains; Region: HTH; cl00088 318167007002 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 318167007003 dimerization interface [polypeptide binding]; other site 318167007004 Cupin domain; Region: Cupin_2; cl09118 318167007005 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 318167007006 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 318167007007 dimer interface [polypeptide binding]; other site 318167007008 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 318167007009 active site 318167007010 Fe binding site [ion binding]; other site 318167007011 LysE type translocator; Region: LysE; cl00565 318167007012 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318167007013 Protein of unknown function, DUF482; Region: DUF482; pfam04339 318167007014 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 318167007015 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 318167007016 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 318167007017 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167007018 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167007019 dimer interface [polypeptide binding]; other site 318167007020 putative CheW interface [polypeptide binding]; other site 318167007021 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 318167007022 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 318167007023 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 318167007024 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 318167007025 active site 318167007026 Zn binding site [ion binding]; other site 318167007027 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 318167007028 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 318167007029 active site 318167007030 metal binding site [ion binding]; metal-binding site 318167007031 AAA domain; Region: AAA_33; pfam13671 318167007032 NAD-dependent deacetylase; Provisional; Region: PRK00481 318167007033 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 318167007034 NAD+ binding site [chemical binding]; other site 318167007035 substrate binding site [chemical binding]; other site 318167007036 Zn binding site [ion binding]; other site 318167007037 ferric uptake regulator; Provisional; Region: fur; PRK09462 318167007038 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 318167007039 metal binding site 2 [ion binding]; metal-binding site 318167007040 putative DNA binding helix; other site 318167007041 metal binding site 1 [ion binding]; metal-binding site 318167007042 dimer interface [polypeptide binding]; other site 318167007043 structural Zn2+ binding site [ion binding]; other site 318167007044 Membrane transport protein; Region: Mem_trans; cl09117 318167007045 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 318167007046 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167007047 CoA-ligase; Region: Ligase_CoA; cl02894 318167007048 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 318167007049 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318167007050 CoA-ligase; Region: Ligase_CoA; cl02894 318167007051 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 318167007052 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 318167007053 E3 interaction surface; other site 318167007054 lipoyl attachment site [posttranslational modification]; other site 318167007055 e3 binding domain; Region: E3_binding; pfam02817 318167007056 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 318167007057 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 318167007058 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 318167007059 TPP-binding site [chemical binding]; other site 318167007060 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 318167007061 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 318167007062 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 318167007063 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 318167007064 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167007065 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 318167007066 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 318167007067 SdhC subunit interface [polypeptide binding]; other site 318167007068 proximal heme binding site [chemical binding]; other site 318167007069 cardiolipin binding site; other site 318167007070 Iron-sulfur protein interface; other site 318167007071 proximal quinone binding site [chemical binding]; other site 318167007072 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 318167007073 Iron-sulfur protein interface; other site 318167007074 proximal quinone binding site [chemical binding]; other site 318167007075 SdhD (CybS) interface [polypeptide binding]; other site 318167007076 proximal heme binding site [chemical binding]; other site 318167007077 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 318167007078 dimer interface [polypeptide binding]; other site 318167007079 Citrate synthase; Region: Citrate_synt; pfam00285 318167007080 active site 318167007081 citrylCoA binding site [chemical binding]; other site 318167007082 NADH binding [chemical binding]; other site 318167007083 cationic pore residues; other site 318167007084 oxalacetate/citrate binding site [chemical binding]; other site 318167007085 coenzyme A binding site [chemical binding]; other site 318167007086 catalytic triad [active] 318167007087 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 318167007088 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 318167007089 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 318167007090 RHS Repeat; Region: RHS_repeat; cl11982 318167007091 RHS Repeat; Region: RHS_repeat; cl11982 318167007092 RHS Repeat; Region: RHS_repeat; cl11982 318167007093 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 318167007094 RHS protein; Region: RHS; pfam03527 318167007095 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 318167007096 Protein of unknown function (DUF4237); Region: DUF4237; pfam14021 318167007097 PAAR motif; Region: PAAR_motif; cl15808 318167007098 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 318167007099 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 318167007100 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 318167007101 Protein of unknown function (DUF796); Region: DUF796; cl01226 318167007102 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 318167007103 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 318167007104 Walker A motif; other site 318167007105 ATP binding site [chemical binding]; other site 318167007106 Walker B motif; other site 318167007107 arginine finger; other site 318167007108 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 318167007109 Walker A motif; other site 318167007110 ATP binding site [chemical binding]; other site 318167007111 Walker B motif; other site 318167007112 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 318167007113 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 318167007114 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 318167007115 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 318167007116 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 318167007117 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167007118 ImpE protein; Region: ImpE; pfam07024 318167007119 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 318167007120 Protein of unknown function (DUF877); Region: DUF877; pfam05943 318167007121 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 318167007122 Protein of unknown function (DUF877); Region: DUF877; pfam05943 318167007123 Protein of unknown function (DUF770); Region: DUF770; cl01402 318167007124 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 318167007125 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 318167007126 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 318167007127 active site 318167007128 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 318167007129 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 318167007130 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 318167007131 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 318167007132 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 318167007133 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 318167007134 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167007135 ligand binding site [chemical binding]; other site 318167007136 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 318167007137 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 318167007138 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 318167007139 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 318167007140 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 318167007141 phosphopeptide binding site; other site 318167007142 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 318167007143 Catalytic domain of Protein Kinases; Region: PKc; cd00180 318167007144 active site 318167007145 ATP binding site [chemical binding]; other site 318167007146 substrate binding site [chemical binding]; other site 318167007147 activation loop (A-loop); other site 318167007148 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167007149 ligand binding site [chemical binding]; other site 318167007150 rhombotail lipoprotein; Region: rhombo_lipo; TIGR04179 318167007151 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167007152 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 318167007153 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 318167007154 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318167007155 Protein export membrane protein; Region: SecD_SecF; cl14618 318167007156 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318167007157 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318167007158 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167007159 Trm112p-like protein; Region: Trm112p; cl01066 318167007160 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 318167007161 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 318167007162 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 318167007163 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318167007164 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 318167007165 Walker A/P-loop; other site 318167007166 ATP binding site [chemical binding]; other site 318167007167 Q-loop/lid; other site 318167007168 ABC transporter signature motif; other site 318167007169 Walker B; other site 318167007170 D-loop; other site 318167007171 H-loop/switch region; other site 318167007172 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 318167007173 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 318167007174 Competence protein; Region: Competence; cl00471 318167007175 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318167007176 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 318167007177 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 318167007178 Helix-turn-helix domains; Region: HTH; cl00088 318167007179 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 318167007180 FAD binding pocket [chemical binding]; other site 318167007181 FAD binding motif [chemical binding]; other site 318167007182 phosphate binding motif [ion binding]; other site 318167007183 NAD binding pocket [chemical binding]; other site 318167007184 Protein of unknown function (DUF3624); Region: DUF3624; pfam12292 318167007185 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 318167007186 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318167007187 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 318167007188 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 318167007189 FtsX-like permease family; Region: FtsX; cl15850 318167007190 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 318167007191 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 318167007192 Walker A/P-loop; other site 318167007193 ATP binding site [chemical binding]; other site 318167007194 Q-loop/lid; other site 318167007195 ABC transporter signature motif; other site 318167007196 Walker B; other site 318167007197 D-loop; other site 318167007198 H-loop/switch region; other site 318167007199 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 318167007200 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 318167007201 FtsX-like permease family; Region: FtsX; cl15850 318167007202 transcription-repair coupling factor; Provisional; Region: PRK10689 318167007203 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 318167007204 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 318167007205 ATP binding site [chemical binding]; other site 318167007206 putative Mg++ binding site [ion binding]; other site 318167007207 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 318167007208 nucleotide binding region [chemical binding]; other site 318167007209 ATP-binding site [chemical binding]; other site 318167007210 TRCF domain; Region: TRCF; cl04088 318167007211 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 318167007212 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 318167007213 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 318167007214 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 318167007215 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 318167007216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 318167007217 CreA protein; Region: CreA; pfam05981 318167007218 putative chaperone; Provisional; Region: PRK11678 318167007219 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 318167007220 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14949 318167007221 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 318167007222 Walker A motif; other site 318167007223 ATP binding site [chemical binding]; other site 318167007224 Walker B motif; other site 318167007225 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167007226 arginine finger; other site 318167007227 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 318167007228 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 318167007229 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 318167007230 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318167007231 active site 318167007232 Protein of unknown function (DUF454); Region: DUF454; cl01063 318167007233 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 318167007234 Winged helix Storkhead-box1 domain; Region: Stork_head; pfam10264 318167007235 Protein of unknown function (DUF692); Region: DUF692; cl01263 318167007236 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 318167007237 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 318167007238 FMN binding site [chemical binding]; other site 318167007239 active site 318167007240 catalytic residues [active] 318167007241 substrate binding site [chemical binding]; other site 318167007242 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 318167007243 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318167007244 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 318167007245 N-terminal plug; other site 318167007246 ligand-binding site [chemical binding]; other site 318167007247 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 318167007248 active site 318167007249 multimer interface [polypeptide binding]; other site 318167007250 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 318167007251 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318167007252 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 318167007253 catalytic loop [active] 318167007254 iron binding site [ion binding]; other site 318167007255 chaperone protein HscA; Provisional; Region: hscA; PRK05183 318167007256 co-chaperone HscB; Provisional; Region: hscB; PRK05014 318167007257 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 318167007258 HSP70 interaction site [polypeptide binding]; other site 318167007259 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 318167007260 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 318167007261 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 318167007262 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 318167007263 trimerization site [polypeptide binding]; other site 318167007264 active site 318167007265 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 318167007266 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 318167007267 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318167007268 catalytic residue [active] 318167007269 Helix-turn-helix domains; Region: HTH; cl00088 318167007270 Rrf2 family protein; Region: rrf2_super; TIGR00738 318167007271 serine O-acetyltransferase; Region: cysE; TIGR01172 318167007272 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 318167007273 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 318167007274 trimer interface [polypeptide binding]; other site 318167007275 active site 318167007276 substrate binding site [chemical binding]; other site 318167007277 CoA binding site [chemical binding]; other site 318167007278 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 318167007279 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 318167007280 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 318167007281 active site 318167007282 dimerization interface [polypeptide binding]; other site 318167007283 Phosphate-starvation-inducible E; Region: PsiE; cl01264 318167007284 PilZ domain; Region: PilZ; cl01260 318167007285 ParA-like protein; Provisional; Region: PHA02518 318167007286 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 318167007287 P-loop; other site 318167007288 Magnesium ion binding site [ion binding]; other site 318167007289 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 318167007290 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 318167007291 GAF domain; Region: GAF; cl15785 318167007292 Histidine kinase; Region: His_kinase; pfam06580 318167007293 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 318167007294 ATP binding site [chemical binding]; other site 318167007295 Mg2+ binding site [ion binding]; other site 318167007296 G-X-G motif; other site 318167007297 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 318167007298 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167007299 active site 318167007300 phosphorylation site [posttranslational modification] 318167007301 intermolecular recognition site; other site 318167007302 dimerization interface [polypeptide binding]; other site 318167007303 LytTr DNA-binding domain; Region: LytTR; cl04498 318167007304 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 318167007305 Carbon starvation protein CstA; Region: CstA; pfam02554 318167007306 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 318167007307 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 318167007308 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 318167007309 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 318167007310 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 318167007311 dimerization interface [polypeptide binding]; other site 318167007312 active site 318167007313 Protein of unknown function (DUF2810); Region: DUF2810; cl08159 318167007314 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318167007315 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 318167007316 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 318167007317 putative active site [active] 318167007318 putative FMN binding site [chemical binding]; other site 318167007319 putative substrate binding site [chemical binding]; other site 318167007320 putative catalytic residue [active] 318167007321 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 318167007322 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 318167007323 FeS/SAM binding site; other site 318167007324 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 318167007325 ATP cone domain; Region: ATP-cone; pfam03477 318167007326 Class III ribonucleotide reductase; Region: RNR_III; cd01675 318167007327 effector binding site; other site 318167007328 active site 318167007329 Zn binding site [ion binding]; other site 318167007330 glycine loop; other site 318167007331 hypothetical protein; Provisional; Region: PRK10279 318167007332 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 318167007333 active site 318167007334 nucleophile elbow; other site 318167007335 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 318167007336 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 318167007337 ATP binding site [chemical binding]; other site 318167007338 Mg++ binding site [ion binding]; other site 318167007339 motif III; other site 318167007340 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 318167007341 nucleotide binding region [chemical binding]; other site 318167007342 ATP-binding site [chemical binding]; other site 318167007343 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 318167007344 Protein of unknown function DUF45; Region: DUF45; cl00636 318167007345 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167007346 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 318167007347 active site 318167007348 metal binding site [ion binding]; metal-binding site 318167007349 putative peptidase; Provisional; Region: PRK11649 318167007350 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 318167007351 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 318167007352 exonuclease subunit SbcC; Provisional; Region: PRK10246 318167007353 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167007354 Walker A/P-loop; other site 318167007355 ATP binding site [chemical binding]; other site 318167007356 Q-loop/lid; other site 318167007357 exonuclease subunit SbcC; Provisional; Region: PRK10246 318167007358 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167007359 ABC transporter signature motif; other site 318167007360 Walker B; other site 318167007361 D-loop; other site 318167007362 H-loop/switch region; other site 318167007363 exonuclease subunit SbcD; Provisional; Region: PRK10966 318167007364 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 318167007365 active site 318167007366 metal binding site [ion binding]; metal-binding site 318167007367 DNA binding site [nucleotide binding] 318167007368 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 318167007369 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 318167007370 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 318167007371 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167007372 NAD(P) binding site [chemical binding]; other site 318167007373 active site 318167007374 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 318167007375 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 318167007376 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 318167007377 NADH(P)-binding; Region: NAD_binding_10; pfam13460 318167007378 putative NAD(P) binding site [chemical binding]; other site 318167007379 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 318167007380 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318167007381 Zn2+ binding site [ion binding]; other site 318167007382 Mg2+ binding site [ion binding]; other site 318167007383 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 318167007384 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 318167007385 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 318167007386 nucleotide binding pocket [chemical binding]; other site 318167007387 K-X-D-G motif; other site 318167007388 catalytic site [active] 318167007389 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 318167007390 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 318167007391 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 318167007392 Dimer interface [polypeptide binding]; other site 318167007393 BRCT sequence motif; other site 318167007394 cell division protein ZipA; Provisional; Region: PRK03427 318167007395 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 318167007396 FtsZ protein binding site [polypeptide binding]; other site 318167007397 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 318167007398 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 318167007399 Walker A/P-loop; other site 318167007400 ATP binding site [chemical binding]; other site 318167007401 Q-loop/lid; other site 318167007402 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 318167007403 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 318167007404 Q-loop/lid; other site 318167007405 ABC transporter signature motif; other site 318167007406 Walker B; other site 318167007407 D-loop; other site 318167007408 H-loop/switch region; other site 318167007409 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 318167007410 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 318167007411 putative ligand binding site [chemical binding]; other site 318167007412 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167007413 active site 318167007414 phosphorylation site [posttranslational modification] 318167007415 intermolecular recognition site; other site 318167007416 dimerization interface [polypeptide binding]; other site 318167007417 Response regulator receiver domain; Region: Response_reg; pfam00072 318167007418 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167007419 active site 318167007420 phosphorylation site [posttranslational modification] 318167007421 intermolecular recognition site; other site 318167007422 dimerization interface [polypeptide binding]; other site 318167007423 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167007424 metal binding site [ion binding]; metal-binding site 318167007425 active site 318167007426 I-site; other site 318167007427 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 318167007428 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 318167007429 dimer interface [polypeptide binding]; other site 318167007430 active site 318167007431 CoA binding pocket [chemical binding]; other site 318167007432 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 318167007433 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 318167007434 dimer interface [polypeptide binding]; other site 318167007435 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167007436 catalytic residue [active] 318167007437 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 318167007438 Helix-turn-helix domains; Region: HTH; cl00088 318167007439 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 318167007440 putative dimerization interface [polypeptide binding]; other site 318167007441 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 318167007442 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 318167007443 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 318167007444 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 318167007445 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 318167007446 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 318167007447 Pyruvate formate lyase 1; Region: PFL1; cd01678 318167007448 coenzyme A binding site [chemical binding]; other site 318167007449 active site 318167007450 catalytic residues [active] 318167007451 glycine loop; other site 318167007452 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 318167007453 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 318167007454 FeS/SAM binding site; other site 318167007455 Protein of unknown function, DUF412; Region: DUF412; cl01183 318167007456 Acetokinase family; Region: Acetate_kinase; cl01029 318167007457 propionate/acetate kinase; Provisional; Region: PRK12379 318167007458 phosphate acetyltransferase; Reviewed; Region: PRK05632 318167007459 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167007460 DRTGG domain; Region: DRTGG; cl12147 318167007461 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 318167007462 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 318167007463 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 318167007464 active site 318167007465 interdomain interaction site; other site 318167007466 putative metal-binding site [ion binding]; other site 318167007467 nucleotide binding site [chemical binding]; other site 318167007468 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 318167007469 domain I; other site 318167007470 DNA binding groove [nucleotide binding] 318167007471 phosphate binding site [ion binding]; other site 318167007472 domain II; other site 318167007473 domain III; other site 318167007474 nucleotide binding site [chemical binding]; other site 318167007475 catalytic site [active] 318167007476 domain IV; other site 318167007477 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 318167007478 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 318167007479 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 318167007480 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 318167007481 Succinylarginine dihydrolase; Region: AstB; cl01511 318167007482 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 318167007483 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 318167007484 LysE type translocator; Region: LysE; cl00565 318167007485 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 318167007486 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 318167007487 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 318167007488 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167007489 Walker A/P-loop; other site 318167007490 ATP binding site [chemical binding]; other site 318167007491 Q-loop/lid; other site 318167007492 ABC transporter signature motif; other site 318167007493 Walker B; other site 318167007494 D-loop; other site 318167007495 H-loop/switch region; other site 318167007496 NMT1-like family; Region: NMT1_2; cl15260 318167007497 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 318167007498 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 318167007499 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167007500 active site 318167007501 phosphorylation site [posttranslational modification] 318167007502 intermolecular recognition site; other site 318167007503 dimerization interface [polypeptide binding]; other site 318167007504 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 318167007505 DNA binding site [nucleotide binding] 318167007506 sensor protein PhoQ; Provisional; Region: PRK10815 318167007507 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 318167007508 ATP binding site [chemical binding]; other site 318167007509 Mg2+ binding site [ion binding]; other site 318167007510 G-X-G motif; other site 318167007511 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 318167007512 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 318167007513 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 318167007514 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318167007515 Zn2+ binding site [ion binding]; other site 318167007516 Mg2+ binding site [ion binding]; other site 318167007517 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 318167007518 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 318167007519 Nucleoid-associated protein [General function prediction only]; Region: COG3081 318167007520 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 318167007521 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 318167007522 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 318167007523 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 318167007524 Sulfatase; Region: Sulfatase; cl10460 318167007525 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 318167007526 active site 318167007527 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 318167007528 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 318167007529 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 318167007530 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 318167007531 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 318167007532 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318167007533 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 318167007534 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 318167007535 putative N-terminal domain interface [polypeptide binding]; other site 318167007536 putative dimer interface [polypeptide binding]; other site 318167007537 putative substrate binding pocket (H-site) [chemical binding]; other site 318167007538 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 318167007539 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 318167007540 EamA-like transporter family; Region: EamA; cl01037 318167007541 AMP-binding domain protein; Validated; Region: PRK08315 318167007542 AMP-binding enzyme; Region: AMP-binding; cl15778 318167007543 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167007544 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 318167007545 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 318167007546 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 318167007547 PAS domain S-box; Region: sensory_box; TIGR00229 318167007548 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 318167007549 putative active site [active] 318167007550 heme pocket [chemical binding]; other site 318167007551 PAS domain; Region: PAS_9; pfam13426 318167007552 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 318167007553 putative active site [active] 318167007554 heme pocket [chemical binding]; other site 318167007555 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 318167007556 dimer interface [polypeptide binding]; other site 318167007557 phosphorylation site [posttranslational modification] 318167007558 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 318167007559 ATP binding site [chemical binding]; other site 318167007560 Mg2+ binding site [ion binding]; other site 318167007561 G-X-G motif; other site 318167007562 Response regulator receiver domain; Region: Response_reg; pfam00072 318167007563 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167007564 active site 318167007565 phosphorylation site [posttranslational modification] 318167007566 intermolecular recognition site; other site 318167007567 dimerization interface [polypeptide binding]; other site 318167007568 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 318167007569 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 318167007570 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167007571 active site 318167007572 phosphorylation site [posttranslational modification] 318167007573 intermolecular recognition site; other site 318167007574 dimerization interface [polypeptide binding]; other site 318167007575 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318167007576 Zn2+ binding site [ion binding]; other site 318167007577 Mg2+ binding site [ion binding]; other site 318167007578 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 318167007579 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 318167007580 putative substrate translocation pore; other site 318167007581 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 318167007582 putative active site [active] 318167007583 putative FMN binding site [chemical binding]; other site 318167007584 putative substrate binding site [chemical binding]; other site 318167007585 putative catalytic residue [active] 318167007586 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 318167007587 Helix-turn-helix domains; Region: HTH; cl00088 318167007588 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 318167007589 dimerization interface [polypeptide binding]; other site 318167007590 chaperone protein DnaJ; Provisional; Region: PRK14281 318167007591 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167007592 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 318167007593 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167007594 Helix-turn-helix domains; Region: HTH; cl00088 318167007595 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 318167007596 putative effector binding pocket; other site 318167007597 dimerization interface [polypeptide binding]; other site 318167007598 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 318167007599 dimerization unit; other site 318167007600 glutathione (GSH) binding pocket [chemical binding]; other site 318167007601 active site residues [active] 318167007602 ATP binding pocket [chemical binding]; other site 318167007603 magnesium binding site [ion binding]; other site 318167007604 glycine rich loop; other site 318167007605 alanine rich loop; other site 318167007606 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 318167007607 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167007608 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 318167007609 DNA binding residues [nucleotide binding] 318167007610 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 318167007611 dimerization interface [polypeptide binding]; other site 318167007612 putative DNA binding site [nucleotide binding]; other site 318167007613 putative Zn2+ binding site [ion binding]; other site 318167007614 Predicted permeases [General function prediction only]; Region: COG0701 318167007615 Predicted permease; Region: DUF318; pfam03773 318167007616 Cation efflux family; Region: Cation_efflux; cl00316 318167007617 Cation efflux family; Region: Cation_efflux; cl00316 318167007618 Transcriptional regulators [Transcription]; Region: MarR; COG1846 318167007619 Helix-turn-helix domains; Region: HTH; cl00088 318167007620 HupE / UreJ protein; Region: HupE_UreJ; cl01011 318167007621 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 318167007622 Helix-turn-helix domains; Region: HTH; cl00088 318167007623 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 318167007624 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 318167007625 TMAO/DMSO reductase; Reviewed; Region: PRK05363 318167007626 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 318167007627 Moco binding site; other site 318167007628 metal coordination site [ion binding]; other site 318167007629 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 318167007630 RmuC family; Region: RmuC; pfam02646 318167007631 lytic murein transglycosylase; Provisional; Region: PRK11619 318167007632 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 318167007633 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318167007634 catalytic residue [active] 318167007635 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 318167007636 Walker A motif; other site 318167007637 ATP binding site [chemical binding]; other site 318167007638 Walker B motif; other site 318167007639 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 318167007640 arginine finger; other site 318167007641 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 318167007642 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 318167007643 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 318167007644 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 318167007645 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 318167007646 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 318167007647 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 318167007648 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 318167007649 Family description; Region: UvrD_C_2; cl15862 318167007650 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 318167007651 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 318167007652 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167007653 Family description; Region: UvrD_C_2; cl15862 318167007654 Restriction endonuclease; Region: Mrr_cat; cl00516 318167007655 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 318167007656 Alkaline phosphatase homologues; Region: alkPPc; smart00098 318167007657 active site 318167007658 dimer interface [polypeptide binding]; other site 318167007659 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 318167007660 dimer interface [polypeptide binding]; other site 318167007661 Alkaline phosphatase homologues; Region: alkPPc; smart00098 318167007662 active site 318167007663 Flagellin N-methylase; Region: FliB; cl00497 318167007664 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 318167007665 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 318167007666 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 318167007667 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 318167007668 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 318167007669 N-terminal plug; other site 318167007670 ligand-binding site [chemical binding]; other site 318167007671 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 318167007672 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 318167007673 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318167007674 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 318167007675 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 318167007676 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 318167007677 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 318167007678 [4Fe-4S] binding site [ion binding]; other site 318167007679 molybdopterin cofactor binding site; other site 318167007680 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 318167007681 molybdopterin cofactor binding site; other site 318167007682 NapD protein; Region: NapD; cl01163 318167007683 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 318167007684 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 318167007685 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 318167007686 S-adenosylmethionine binding site [chemical binding]; other site 318167007687 Domain of unknown function DUF20; Region: UPF0118; pfam01594 318167007688 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 318167007689 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 318167007690 homooctamer interface [polypeptide binding]; other site 318167007691 active site 318167007692 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 318167007693 TIGR01777 family protein; Region: yfcH 318167007694 putative NAD(P) binding site [chemical binding]; other site 318167007695 putative active site [active] 318167007696 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167007697 Helix-turn-helix domains; Region: HTH; cl00088 318167007698 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 318167007699 dimerization interface [polypeptide binding]; other site 318167007700 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167007701 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 318167007702 active site 318167007703 metal binding site [ion binding]; metal-binding site 318167007704 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 318167007705 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 318167007706 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 318167007707 active site 318167007708 uracil binding [chemical binding]; other site 318167007709 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 318167007710 Protein of unknown function (DUF2805); Region: DUF2805; cl11923 318167007711 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 318167007712 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 318167007713 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 318167007714 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 318167007715 Walker A/P-loop; other site 318167007716 ATP binding site [chemical binding]; other site 318167007717 Q-loop/lid; other site 318167007718 ABC transporter signature motif; other site 318167007719 Walker B; other site 318167007720 D-loop; other site 318167007721 H-loop/switch region; other site 318167007722 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 318167007723 active site 318167007724 catalytic triad [active] 318167007725 oxyanion hole [active] 318167007726 switch loop; other site 318167007727 Protein of unknown function (DUF3083); Region: DUF3083; pfam11281 318167007728 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 318167007729 putative inner membrane peptidase; Provisional; Region: PRK11778 318167007730 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 318167007731 tandem repeat interface [polypeptide binding]; other site 318167007732 oligomer interface [polypeptide binding]; other site 318167007733 active site residues [active] 318167007734 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 318167007735 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 318167007736 short chain dehydrogenase; Provisional; Region: PRK08703 318167007737 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167007738 NAD(P) binding site [chemical binding]; other site 318167007739 active site 318167007740 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 318167007741 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 318167007742 hypothetical protein; Provisional; Region: PRK05415 318167007743 Domain of unknown function (DUF697); Region: DUF697; cl12064 318167007744 YcjX-like family, DUF463; Region: DUF463; cl01193 318167007745 phage shock protein C; Region: phageshock_pspC; TIGR02978 318167007746 PspC domain; Region: PspC; cl00864 318167007747 Phage shock protein B; Region: PspB; cl05946 318167007748 phage shock protein A; Region: phageshock_pspA; TIGR02977 318167007749 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 318167007750 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 318167007751 Walker A motif; other site 318167007752 ATP binding site [chemical binding]; other site 318167007753 Walker B motif; other site 318167007754 arginine finger; other site 318167007755 Helix-turn-helix domains; Region: HTH; cl00088 318167007756 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 318167007757 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 318167007758 peptide binding site [polypeptide binding]; other site 318167007759 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 318167007760 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 318167007761 dimer interface [polypeptide binding]; other site 318167007762 conserved gate region; other site 318167007763 putative PBP binding loops; other site 318167007764 ABC-ATPase subunit interface; other site 318167007765 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 318167007766 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 318167007767 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 318167007768 dimer interface [polypeptide binding]; other site 318167007769 conserved gate region; other site 318167007770 putative PBP binding loops; other site 318167007771 ABC-ATPase subunit interface; other site 318167007772 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 318167007773 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 318167007774 Walker A/P-loop; other site 318167007775 ATP binding site [chemical binding]; other site 318167007776 Q-loop/lid; other site 318167007777 ABC transporter signature motif; other site 318167007778 Walker B; other site 318167007779 D-loop; other site 318167007780 H-loop/switch region; other site 318167007781 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318167007782 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 318167007783 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 318167007784 Walker A/P-loop; other site 318167007785 ATP binding site [chemical binding]; other site 318167007786 Q-loop/lid; other site 318167007787 ABC transporter signature motif; other site 318167007788 Walker B; other site 318167007789 D-loop; other site 318167007790 H-loop/switch region; other site 318167007791 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318167007792 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 318167007793 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 318167007794 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167007795 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 318167007796 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 318167007797 heme-binding residues [chemical binding]; other site 318167007798 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 318167007799 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167007800 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 318167007801 trimer interface [polypeptide binding]; other site 318167007802 eyelet of channel; other site 318167007803 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 318167007804 Helix-turn-helix domains; Region: HTH; cl00088 318167007805 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 318167007806 putative dimerization interface [polypeptide binding]; other site 318167007807 Protein of unknown function (DUF819); Region: DUF819; cl02317 318167007808 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 318167007809 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 318167007810 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 318167007811 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 318167007812 periplasmic folding chaperone; Provisional; Region: PRK10788 318167007813 SurA N-terminal domain; Region: SurA_N_3; cl07813 318167007814 PPIC-type PPIASE domain; Region: Rotamase; cl08278 318167007815 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 318167007816 IHF dimer interface [polypeptide binding]; other site 318167007817 IHF - DNA interface [nucleotide binding]; other site 318167007818 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 318167007819 Found in ATP-dependent protease La (LON); Region: LON; smart00464 318167007820 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 318167007821 Walker A motif; other site 318167007822 ATP binding site [chemical binding]; other site 318167007823 Walker B motif; other site 318167007824 arginine finger; other site 318167007825 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 318167007826 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 318167007827 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 318167007828 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 318167007829 Walker A motif; other site 318167007830 ATP binding site [chemical binding]; other site 318167007831 Walker B motif; other site 318167007832 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 318167007833 Clp protease; Region: CLP_protease; pfam00574 318167007834 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 318167007835 oligomer interface [polypeptide binding]; other site 318167007836 active site residues [active] 318167007837 trigger factor; Provisional; Region: tig; PRK01490 318167007838 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 318167007839 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 318167007840 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 318167007841 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 318167007842 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 318167007843 homodimer interface [polypeptide binding]; other site 318167007844 NADP binding site [chemical binding]; other site 318167007845 substrate binding site [chemical binding]; other site 318167007846 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 318167007847 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 318167007848 active site 318167007849 HIGH motif; other site 318167007850 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 318167007851 KMSKS motif; other site 318167007852 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 318167007853 tRNA binding surface [nucleotide binding]; other site 318167007854 anticodon binding site; other site 318167007855 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 318167007856 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 318167007857 substrate binding site [chemical binding]; other site 318167007858 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 318167007859 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 318167007860 putative active site [active] 318167007861 putative metal binding site [ion binding]; other site 318167007862 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 318167007863 dinuclear metal binding motif [ion binding]; other site 318167007864 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 318167007865 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 318167007866 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 318167007867 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 318167007868 FRG domain; Region: FRG; cl07460 318167007869 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 318167007870 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 318167007871 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 318167007872 HsdM N-terminal domain; Region: HsdM_N; pfam12161 318167007873 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 318167007874 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167007875 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 318167007876 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 318167007877 active site 318167007878 dinuclear metal binding site [ion binding]; other site 318167007879 dimerization interface [polypeptide binding]; other site 318167007880 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 318167007881 catalytic residues [active] 318167007882 catalytic nucleophile [active] 318167007883 Recombinase; Region: Recombinase; pfam07508 318167007884 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 318167007885 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 318167007886 Yip1 domain; Region: Yip1; cl12048 318167007887 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 318167007888 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318167007889 active site 318167007890 HIGH motif; other site 318167007891 nucleotide binding site [chemical binding]; other site 318167007892 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 318167007893 KMSKS motif; other site 318167007894 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 318167007895 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 318167007896 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 318167007897 G1 box; other site 318167007898 GTP/Mg2+ binding site [chemical binding]; other site 318167007899 Switch I region; other site 318167007900 G2 box; other site 318167007901 G3 box; other site 318167007902 Switch II region; other site 318167007903 G4 box; other site 318167007904 G5 box; other site 318167007905 Nucleoside recognition; Region: Gate; cl00486 318167007906 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 318167007907 Nucleoside recognition; Region: Gate; cl00486 318167007908 FeoA domain; Region: FeoA; cl00838 318167007909 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 318167007910 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318167007911 PPIC-type PPIASE domain; Region: Rotamase; cl08278 318167007912 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 318167007913 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 318167007914 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 318167007915 TPR motif; other site 318167007916 binding surface 318167007917 Gram-negative bacterial tonB protein; Region: TonB; cl10048 318167007918 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 318167007919 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 318167007920 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 318167007921 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 318167007922 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 318167007923 S-adenosylmethionine binding site [chemical binding]; other site 318167007924 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 318167007925 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 318167007926 DNA polymerase II; Reviewed; Region: PRK05762 318167007927 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 318167007928 active site 318167007929 catalytic site [active] 318167007930 substrate binding site [chemical binding]; other site 318167007931 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 318167007932 active site 318167007933 metal-binding site 318167007934 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 318167007935 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167007936 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167007937 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 318167007938 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 318167007939 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 318167007940 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 318167007941 Late competence development protein ComFB; Region: ComFB; pfam10719 318167007942 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 318167007943 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 318167007944 heme-binding residues [chemical binding]; other site 318167007945 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 318167007946 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 318167007947 heme-binding residues [chemical binding]; other site 318167007948 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 318167007949 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 318167007950 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 318167007951 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 318167007952 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 318167007953 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 318167007954 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 318167007955 Helix-turn-helix domains; Region: HTH; cl00088 318167007956 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 318167007957 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 318167007958 Glycerate kinase family; Region: Gly_kinase; cl00841 318167007959 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 318167007960 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 318167007961 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318167007962 catalytic residue [active] 318167007963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318167007964 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318167007965 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318167007966 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 318167007967 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 318167007968 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 318167007969 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 318167007970 GIY-YIG motif/motif A; other site 318167007971 active site 318167007972 catalytic site [active] 318167007973 putative DNA binding site [nucleotide binding]; other site 318167007974 metal binding site [ion binding]; metal-binding site 318167007975 UvrB/uvrC motif; Region: UVR; pfam02151 318167007976 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 318167007977 response regulator; Provisional; Region: PRK09483 318167007978 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167007979 active site 318167007980 phosphorylation site [posttranslational modification] 318167007981 intermolecular recognition site; other site 318167007982 dimerization interface [polypeptide binding]; other site 318167007983 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 318167007984 DNA binding residues [nucleotide binding] 318167007985 dimerization interface [polypeptide binding]; other site 318167007986 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 318167007987 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 318167007988 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 318167007989 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 318167007990 active site turn [active] 318167007991 phosphorylation site [posttranslational modification] 318167007992 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cl00164 318167007993 active site turn [active] 318167007994 phosphorylation site [posttranslational modification] 318167007995 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 318167007996 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 318167007997 PAS fold; Region: PAS_3; pfam08447 318167007998 putative active site [active] 318167007999 heme pocket [chemical binding]; other site 318167008000 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167008001 metal binding site [ion binding]; metal-binding site 318167008002 active site 318167008003 I-site; other site 318167008004 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 318167008005 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 318167008006 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 318167008007 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 318167008008 active site 1 [active] 318167008009 dimer interface [polypeptide binding]; other site 318167008010 active site 2 [active] 318167008011 Ribosome modulation factor; Region: RMF; cl01207 318167008012 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 318167008013 ABC transporter ATPase component; Reviewed; Region: PRK11147 318167008014 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 318167008015 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 318167008016 ABC transporter; Region: ABC_tran_2; pfam12848 318167008017 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 318167008018 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 318167008019 catalytic residues [active] 318167008020 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 318167008021 THUMP domain; Region: THUMP; cl12076 318167008022 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167008023 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 318167008024 S-adenosylmethionine binding site [chemical binding]; other site 318167008025 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 318167008026 active site residue [active] 318167008027 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 318167008028 YfcL protein; Region: YfcL; pfam08891 318167008029 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 318167008030 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 318167008031 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 318167008032 putative substrate translocation pore; other site 318167008033 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 318167008034 Tetramer interface [polypeptide binding]; other site 318167008035 active site 318167008036 FMN-binding site [chemical binding]; other site 318167008037 HemK family putative methylases; Region: hemK_fam; TIGR00536 318167008038 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 318167008039 S-adenosylmethionine binding site [chemical binding]; other site 318167008040 hypothetical protein; Provisional; Region: PRK04946 318167008041 Smr domain; Region: Smr; cl02619 318167008042 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 318167008043 catalytic core [active] 318167008044 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 318167008045 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 318167008046 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 318167008047 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 318167008048 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 318167008049 RNA polymerase beta'' subunit; Reviewed; Region: rpoC2; CHL00117 318167008050 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 318167008051 PAS fold; Region: PAS_3; pfam08447 318167008052 PAS domain; Region: PAS_9; pfam13426 318167008053 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 318167008054 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167008055 metal binding site [ion binding]; metal-binding site 318167008056 active site 318167008057 I-site; other site 318167008058 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 318167008059 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 318167008060 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 318167008061 substrate binding site [chemical binding]; other site 318167008062 oxyanion hole (OAH) forming residues; other site 318167008063 trimer interface [polypeptide binding]; other site 318167008064 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167008065 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318167008066 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318167008067 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 318167008068 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 318167008069 dimer interface [polypeptide binding]; other site 318167008070 active site 318167008071 MoxR-like ATPases [General function prediction only]; Region: COG0714 318167008072 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 318167008073 Walker A motif; other site 318167008074 ATP binding site [chemical binding]; other site 318167008075 Walker B motif; other site 318167008076 arginine finger; other site 318167008077 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 318167008078 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 318167008079 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 318167008080 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 318167008081 metal ion-dependent adhesion site (MIDAS); other site 318167008082 Aerotolerance regulator N-terminal; Region: BatA; cl06567 318167008083 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 318167008084 metal ion-dependent adhesion site (MIDAS); other site 318167008085 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 318167008086 binding surface 318167008087 TPR motif; other site 318167008088 Tetratricopeptide repeat; Region: TPR_16; pfam13432 318167008089 Oxygen tolerance; Region: BatD; pfam13584 318167008090 RNA polymerase sigma factor; Provisional; Region: PRK12517 318167008091 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167008092 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 318167008093 DNA binding residues [nucleotide binding] 318167008094 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 318167008095 Sodium:solute symporter family; Region: SSF; cl00456 318167008096 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 318167008097 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167008098 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318167008099 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 318167008100 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 318167008101 active site residue [active] 318167008102 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 318167008103 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 318167008104 active site 318167008105 catalytic residues [active] 318167008106 PA_VapT_like: Protease-associated domain containing proteins like VapT from Vibrio metschnikovii strain RH530. This group contains various PA domain-containing proteins similar to V. metschnikovii VapT, including the serine alkaline protease SapSh from...; Region: PA_VapT_like; cd04817 318167008107 PA/subtilisin-like domain interface [polypeptide binding]; other site 318167008108 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 318167008109 catalytic residues [active] 318167008110 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 318167008111 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 318167008112 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_27; cd04640 318167008113 YaeQ protein; Region: YaeQ; cl01913 318167008114 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 318167008115 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167008116 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 318167008117 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 318167008118 active site residue [active] 318167008119 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 318167008120 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 318167008121 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 318167008122 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 318167008123 Protein export membrane protein; Region: SecD_SecF; cl14618 318167008124 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 318167008125 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 318167008126 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 318167008127 Protein export membrane protein; Region: SecD_SecF; cl14618 318167008128 Preprotein translocase subunit; Region: YajC; cl00806 318167008129 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 318167008130 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 318167008131 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 318167008132 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 318167008133 Protein of unknown function, DUF479; Region: DUF479; cl01203 318167008134 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 318167008135 catalytic residues [active] 318167008136 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 318167008137 active site 318167008138 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 318167008139 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 318167008140 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 318167008141 Response regulator receiver domain; Region: Response_reg; pfam00072 318167008142 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167008143 active site 318167008144 phosphorylation site [posttranslational modification] 318167008145 intermolecular recognition site; other site 318167008146 dimerization interface [polypeptide binding]; other site 318167008147 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 318167008148 active site 318167008149 catalytic residues [active] 318167008150 helicase 45; Provisional; Region: PTZ00424 318167008151 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 318167008152 ATP binding site [chemical binding]; other site 318167008153 Mg++ binding site [ion binding]; other site 318167008154 motif III; other site 318167008155 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 318167008156 nucleotide binding region [chemical binding]; other site 318167008157 ATP-binding site [chemical binding]; other site 318167008158 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 318167008159 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 318167008160 DNA binding site [nucleotide binding] 318167008161 active site 318167008162 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 318167008163 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 318167008164 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318167008165 AlkA N-terminal domain; Region: AlkA_N; cl05528 318167008166 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 318167008167 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 318167008168 minor groove reading motif; other site 318167008169 helix-hairpin-helix signature motif; other site 318167008170 substrate binding pocket [chemical binding]; other site 318167008171 active site 318167008172 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 318167008173 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318167008174 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167008175 Walker A/P-loop; other site 318167008176 ATP binding site [chemical binding]; other site 318167008177 Q-loop/lid; other site 318167008178 ABC transporter signature motif; other site 318167008179 Walker B; other site 318167008180 D-loop; other site 318167008181 H-loop/switch region; other site 318167008182 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 318167008183 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 318167008184 active site 318167008185 HIGH motif; other site 318167008186 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 318167008187 active site 318167008188 KMSKS motif; other site 318167008189 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 318167008190 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 318167008191 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 318167008192 DctM-like transporters; Region: DctM; pfam06808 318167008193 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 318167008194 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 318167008195 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 318167008196 dimer interface [polypeptide binding]; other site 318167008197 phosphorylation site [posttranslational modification] 318167008198 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 318167008199 ATP binding site [chemical binding]; other site 318167008200 Mg2+ binding site [ion binding]; other site 318167008201 G-X-G motif; other site 318167008202 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318167008203 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167008204 active site 318167008205 phosphorylation site [posttranslational modification] 318167008206 intermolecular recognition site; other site 318167008207 dimerization interface [polypeptide binding]; other site 318167008208 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 318167008209 Walker A motif; other site 318167008210 ATP binding site [chemical binding]; other site 318167008211 Walker B motif; other site 318167008212 arginine finger; other site 318167008213 Helix-turn-helix domains; Region: HTH; cl00088 318167008214 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 318167008215 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318167008216 putative substrate translocation pore; other site 318167008217 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 318167008218 acyl-CoA thioesterase II; Provisional; Region: PRK10526 318167008219 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 318167008220 active site 318167008221 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 318167008222 catalytic triad [active] 318167008223 dimer interface [polypeptide binding]; other site 318167008224 UbiA prenyltransferase family; Region: UbiA; cl00337 318167008225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167008226 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 318167008227 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 318167008228 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 318167008229 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 318167008230 AMP-binding enzyme; Region: AMP-binding; cl15778 318167008231 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167008232 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 318167008233 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 318167008234 DNA binding residues [nucleotide binding] 318167008235 putative dimer interface [polypeptide binding]; other site 318167008236 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 318167008237 isovaleryl-CoA dehydrogenase; Region: PLN02519 318167008238 substrate binding site [chemical binding]; other site 318167008239 FAD binding site [chemical binding]; other site 318167008240 catalytic base [active] 318167008241 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 318167008242 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 318167008243 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 318167008244 enoyl-CoA hydratase; Provisional; Region: PRK05995 318167008245 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 318167008246 substrate binding site [chemical binding]; other site 318167008247 oxyanion hole (OAH) forming residues; other site 318167008248 trimer interface [polypeptide binding]; other site 318167008249 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 318167008250 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 318167008251 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318167008252 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 318167008253 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 318167008254 carboxyltransferase (CT) interaction site; other site 318167008255 biotinylation site [posttranslational modification]; other site 318167008256 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 318167008257 active site 318167008258 catalytic residues [active] 318167008259 metal binding site [ion binding]; metal-binding site 318167008260 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 318167008261 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 318167008262 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 318167008263 Ligand Binding Site [chemical binding]; other site 318167008264 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 318167008265 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 318167008266 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 318167008267 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 318167008268 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 318167008269 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 318167008270 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06591 318167008271 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 318167008272 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 318167008273 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 318167008274 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 318167008275 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 318167008276 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 318167008277 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318167008278 active site 318167008279 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 318167008280 thymidine kinase; Provisional; Region: PRK04296 318167008281 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 318167008282 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 318167008283 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 318167008284 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 318167008285 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 318167008286 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 318167008287 Ligand binding site [chemical binding]; other site 318167008288 Electron transfer flavoprotein domain; Region: ETF; pfam01012 318167008289 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 318167008290 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 318167008291 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 318167008292 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 318167008293 homodimer interaction site [polypeptide binding]; other site 318167008294 cofactor binding site; other site 318167008295 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 318167008296 putative CoA binding site [chemical binding]; other site 318167008297 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 318167008298 trimer interface [polypeptide binding]; other site 318167008299 active site 318167008300 substrate binding site [chemical binding]; other site 318167008301 CoA binding site [chemical binding]; other site 318167008302 prolyl-tRNA synthetase; Provisional; Region: PRK09194 318167008303 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 318167008304 dimer interface [polypeptide binding]; other site 318167008305 motif 1; other site 318167008306 active site 318167008307 motif 2; other site 318167008308 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 318167008309 putative deacylase active site [active] 318167008310 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 318167008311 active site 318167008312 motif 3; other site 318167008313 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 318167008314 anticodon binding site; other site 318167008315 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 318167008316 GAF domain; Region: GAF; cl15785 318167008317 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 318167008318 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 318167008319 ATP binding site [chemical binding]; other site 318167008320 Mg2+ binding site [ion binding]; other site 318167008321 G-X-G motif; other site 318167008322 Response regulator receiver domain; Region: Response_reg; pfam00072 318167008323 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 318167008324 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318167008325 Zn2+ binding site [ion binding]; other site 318167008326 Mg2+ binding site [ion binding]; other site 318167008327 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 318167008328 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 318167008329 nucleophile elbow; other site 318167008330 NlpE N-terminal domain; Region: NlpE; cl01138 318167008331 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 318167008332 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 318167008333 substrate binding site; other site 318167008334 tetramer interface; other site 318167008335 Cupin domain; Region: Cupin_2; cl09118 318167008336 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 318167008337 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 318167008338 NAD binding site [chemical binding]; other site 318167008339 substrate binding site [chemical binding]; other site 318167008340 homodimer interface [polypeptide binding]; other site 318167008341 active site 318167008342 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 318167008343 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 318167008344 NADP binding site [chemical binding]; other site 318167008345 active site 318167008346 putative substrate binding site [chemical binding]; other site 318167008347 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 318167008348 MgtE intracellular N domain; Region: MgtE_N; cl15244 318167008349 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 318167008350 Divalent cation transporter; Region: MgtE; cl00786 318167008351 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 318167008352 catalytic residues [active] 318167008353 dimer interface [polypeptide binding]; other site 318167008354 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 318167008355 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 318167008356 active site 318167008357 Zn binding site [ion binding]; other site 318167008358 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 318167008359 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 318167008360 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 318167008361 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 318167008362 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 318167008363 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 318167008364 dimer interface [polypeptide binding]; other site 318167008365 phosphorylation site [posttranslational modification] 318167008366 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 318167008367 ATP binding site [chemical binding]; other site 318167008368 Mg2+ binding site [ion binding]; other site 318167008369 G-X-G motif; other site 318167008370 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 318167008371 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167008372 active site 318167008373 phosphorylation site [posttranslational modification] 318167008374 intermolecular recognition site; other site 318167008375 dimerization interface [polypeptide binding]; other site 318167008376 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 318167008377 DNA binding site [nucleotide binding] 318167008378 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 318167008379 trimer interface [polypeptide binding]; other site 318167008380 eyelet of channel; other site 318167008381 Putative exonuclease, RdgC; Region: RdgC; cl01122 318167008382 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318167008383 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 318167008384 C-terminal domain interface [polypeptide binding]; other site 318167008385 GSH binding site (G-site) [chemical binding]; other site 318167008386 dimer interface [polypeptide binding]; other site 318167008387 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318167008388 N-terminal domain interface [polypeptide binding]; other site 318167008389 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 318167008390 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 318167008391 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 318167008392 protein binding site [polypeptide binding]; other site 318167008393 Tetratricopeptide repeat; Region: TPR_12; pfam13424 318167008394 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 318167008395 binding surface 318167008396 TPR motif; other site 318167008397 Tetratricopeptide repeat; Region: TPR_12; pfam13424 318167008398 Tetratricopeptide repeat; Region: TPR_12; pfam13424 318167008399 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167008400 metal binding site [ion binding]; metal-binding site 318167008401 active site 318167008402 I-site; other site 318167008403 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 318167008404 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 318167008405 flap endonuclease-like protein; Provisional; Region: PRK09482 318167008406 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 318167008407 active site 318167008408 metal binding site 1 [ion binding]; metal-binding site 318167008409 putative 5' ssDNA interaction site; other site 318167008410 metal binding site 3; metal-binding site 318167008411 metal binding site 2 [ion binding]; metal-binding site 318167008412 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 318167008413 putative DNA binding site [nucleotide binding]; other site 318167008414 putative metal binding site [ion binding]; other site 318167008415 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 318167008416 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 318167008417 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167008418 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 318167008419 tartrate dehydrogenase; Provisional; Region: PRK08194 318167008420 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 318167008421 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 318167008422 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 318167008423 Protein of unknown function (DUF423); Region: DUF423; cl01008 318167008424 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 318167008425 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 318167008426 Helix-turn-helix domains; Region: HTH; cl00088 318167008427 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 318167008428 dimerization interface [polypeptide binding]; other site 318167008429 substrate binding pocket [chemical binding]; other site 318167008430 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 318167008431 THUMP domain; Region: THUMP; cl12076 318167008432 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 318167008433 Ligand Binding Site [chemical binding]; other site 318167008434 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 318167008435 active site residue [active] 318167008436 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 318167008437 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 318167008438 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167008439 ligand binding site [chemical binding]; other site 318167008440 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 318167008441 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 318167008442 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 318167008443 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 318167008444 substrate binding pocket [chemical binding]; other site 318167008445 chain length determination region; other site 318167008446 substrate-Mg2+ binding site; other site 318167008447 catalytic residues [active] 318167008448 aspartate-rich region 1; other site 318167008449 active site lid residues [active] 318167008450 aspartate-rich region 2; other site 318167008451 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 318167008452 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 318167008453 TPP-binding site; other site 318167008454 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 318167008455 PYR/PP interface [polypeptide binding]; other site 318167008456 dimer interface [polypeptide binding]; other site 318167008457 TPP binding site [chemical binding]; other site 318167008458 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 318167008459 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 318167008460 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 318167008461 dimer interface [polypeptide binding]; other site 318167008462 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 318167008463 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 318167008464 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 318167008465 L-lactate permease; Region: Lactate_perm; cl00701 318167008466 glycolate transporter; Provisional; Region: PRK09695 318167008467 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 318167008468 FAD binding domain; Region: FAD_binding_4; pfam01565 318167008469 4Fe-4S binding domain; Region: Fer4; cl02805 318167008470 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 318167008471 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167008472 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 318167008473 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 318167008474 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 318167008475 ATP binding site [chemical binding]; other site 318167008476 Mg++ binding site [ion binding]; other site 318167008477 motif III; other site 318167008478 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 318167008479 nucleotide binding region [chemical binding]; other site 318167008480 ATP-binding site [chemical binding]; other site 318167008481 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 318167008482 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 318167008483 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 318167008484 putative active site [active] 318167008485 heme pocket [chemical binding]; other site 318167008486 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 318167008487 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 318167008488 PAS domain; Region: PAS_9; pfam13426 318167008489 putative active site [active] 318167008490 heme pocket [chemical binding]; other site 318167008491 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167008492 metal binding site [ion binding]; metal-binding site 318167008493 active site 318167008494 I-site; other site 318167008495 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 318167008496 putative alcohol dehydrogenase; Provisional; Region: PRK09860 318167008497 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 318167008498 dimer interface [polypeptide binding]; other site 318167008499 active site 318167008500 metal binding site [ion binding]; metal-binding site 318167008501 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 318167008502 active site 2 [active] 318167008503 active site 1 [active] 318167008504 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 318167008505 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 318167008506 tetramer interface [polypeptide binding]; other site 318167008507 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167008508 catalytic residue [active] 318167008509 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 318167008510 dimer interface [polypeptide binding]; other site 318167008511 catalytic triad [active] 318167008512 peroxidatic and resolving cysteines [active] 318167008513 mechanosensitive channel MscS; Provisional; Region: PRK10334 318167008514 Conserved TM helix; Region: TM_helix; pfam05552 318167008515 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318167008516 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167008517 ligand binding site [chemical binding]; other site 318167008518 Response regulator receiver domain; Region: Response_reg; pfam00072 318167008519 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167008520 active site 318167008521 phosphorylation site [posttranslational modification] 318167008522 intermolecular recognition site; other site 318167008523 dimerization interface [polypeptide binding]; other site 318167008524 VacJ like lipoprotein; Region: VacJ; cl01073 318167008525 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 318167008526 Protein of unknown function (DUF3187); Region: DUF3187; pfam11383 318167008527 Response regulator receiver domain; Region: Response_reg; pfam00072 318167008528 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167008529 active site 318167008530 phosphorylation site [posttranslational modification] 318167008531 intermolecular recognition site; other site 318167008532 dimerization interface [polypeptide binding]; other site 318167008533 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167008534 metal binding site [ion binding]; metal-binding site 318167008535 active site 318167008536 I-site; other site 318167008537 CHASE domain; Region: CHASE; cl01369 318167008538 PAS domain S-box; Region: sensory_box; TIGR00229 318167008539 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 318167008540 putative active site [active] 318167008541 heme pocket [chemical binding]; other site 318167008542 PAS domain; Region: PAS_9; pfam13426 318167008543 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 318167008544 putative active site [active] 318167008545 heme pocket [chemical binding]; other site 318167008546 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 318167008547 PAS domain; Region: PAS_9; pfam13426 318167008548 putative active site [active] 318167008549 heme pocket [chemical binding]; other site 318167008550 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 318167008551 PAS fold; Region: PAS_3; pfam08447 318167008552 putative active site [active] 318167008553 heme pocket [chemical binding]; other site 318167008554 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 318167008555 dimer interface [polypeptide binding]; other site 318167008556 phosphorylation site [posttranslational modification] 318167008557 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 318167008558 ATP binding site [chemical binding]; other site 318167008559 Mg2+ binding site [ion binding]; other site 318167008560 G-X-G motif; other site 318167008561 Response regulator receiver domain; Region: Response_reg; pfam00072 318167008562 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167008563 active site 318167008564 phosphorylation site [posttranslational modification] 318167008565 intermolecular recognition site; other site 318167008566 dimerization interface [polypeptide binding]; other site 318167008567 Response regulator receiver domain; Region: Response_reg; pfam00072 318167008568 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167008569 active site 318167008570 phosphorylation site [posttranslational modification] 318167008571 intermolecular recognition site; other site 318167008572 dimerization interface [polypeptide binding]; other site 318167008573 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 318167008574 putative binding surface; other site 318167008575 active site 318167008576 Major royal jelly protein; Region: MRJP; pfam03022 318167008577 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 318167008578 putative catalytic residues [active] 318167008579 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167008580 Helix-turn-helix domains; Region: HTH; cl00088 318167008581 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 318167008582 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 318167008583 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 318167008584 N-terminal plug; other site 318167008585 ligand-binding site [chemical binding]; other site 318167008586 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 318167008587 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 318167008588 DNA binding residues [nucleotide binding] 318167008589 dimer interface [polypeptide binding]; other site 318167008590 putative metal binding site [ion binding]; other site 318167008591 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 318167008592 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318167008593 Beta-Casp domain; Region: Beta-Casp; cl12567 318167008594 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 318167008595 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 318167008596 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 318167008597 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 318167008598 active site 318167008599 substrate binding site [chemical binding]; other site 318167008600 metal binding site [ion binding]; metal-binding site 318167008601 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 318167008602 active site 318167008603 tetramer interface; other site 318167008604 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 318167008605 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 318167008606 Mg++ binding site [ion binding]; other site 318167008607 putative catalytic motif [active] 318167008608 substrate binding site [chemical binding]; other site 318167008609 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 318167008610 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 318167008611 Mg++ binding site [ion binding]; other site 318167008612 putative catalytic motif [active] 318167008613 substrate binding site [chemical binding]; other site 318167008614 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 318167008615 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 318167008616 Cupin domain; Region: Cupin_2; cl09118 318167008617 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 318167008618 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 318167008619 NADP binding site [chemical binding]; other site 318167008620 active site 318167008621 putative substrate binding site [chemical binding]; other site 318167008622 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 318167008623 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 318167008624 substrate binding site; other site 318167008625 tetramer interface; other site 318167008626 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 318167008627 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 318167008628 NAD binding site [chemical binding]; other site 318167008629 substrate binding site [chemical binding]; other site 318167008630 homodimer interface [polypeptide binding]; other site 318167008631 active site 318167008632 Thiamin pyrophosphokinase, catalytic domain; Region: TPK_catalytic; cl09135 318167008633 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 318167008634 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 318167008635 active site 318167008636 MatE; Region: MatE; cl10513 318167008637 FkbH-like domain; Region: FkbH; TIGR01686 318167008638 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318167008639 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 318167008640 classical (c) SDRs; Region: SDR_c; cd05233 318167008641 NAD(P) binding site [chemical binding]; other site 318167008642 active site 318167008643 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 318167008644 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167008645 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 318167008646 ligand binding site; other site 318167008647 tetramer interface; other site 318167008648 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 318167008649 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 318167008650 active site 318167008651 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 318167008652 Chain length determinant protein; Region: Wzz; cl15801 318167008653 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 318167008654 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 318167008655 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 318167008656 SLBB domain; Region: SLBB; pfam10531 318167008657 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 318167008658 SLBB domain; Region: SLBB; pfam10531 318167008659 SLBB domain; Region: SLBB; pfam10531 318167008660 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 318167008661 SLBB domain; Region: SLBB; pfam10531 318167008662 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 318167008663 transcriptional activator RfaH; Region: RfaH; TIGR01955 318167008664 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 318167008665 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 318167008666 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 318167008667 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 318167008668 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 318167008669 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 318167008670 active site 318167008671 motif I; other site 318167008672 motif II; other site 318167008673 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318167008674 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 318167008675 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 318167008676 translation initiation factor Sui1; Validated; Region: PRK06824 318167008677 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 318167008678 Predicted RNA interaction site [nucleotide binding]; other site 318167008679 putative binding site; other site 318167008680 Mutations affecting start-site selection; other site 318167008681 ferrochelatase; Reviewed; Region: hemH; PRK00035 318167008682 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 318167008683 C-terminal domain interface [polypeptide binding]; other site 318167008684 active site 318167008685 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 318167008686 active site 318167008687 N-terminal domain interface [polypeptide binding]; other site 318167008688 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 318167008689 catalytic residues [active] 318167008690 dimer interface [polypeptide binding]; other site 318167008691 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167008692 ATP binding site [chemical binding]; other site 318167008693 Walker A motif; other site 318167008694 Walker B motif; other site 318167008695 Helix-turn-helix domains; Region: HTH; cl00088 318167008696 putative transposase OrfB; Reviewed; Region: PHA02517 318167008697 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 318167008698 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 318167008699 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 318167008700 Walker A motif; other site 318167008701 ATP binding site [chemical binding]; other site 318167008702 Walker B motif; other site 318167008703 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 318167008704 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318167008705 catalytic residue [active] 318167008706 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167008707 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 318167008708 YGGT family; Region: YGGT; cl00508 318167008709 YGGT family; Region: YGGT; cl00508 318167008710 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 318167008711 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 318167008712 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 318167008713 active site 318167008714 dimerization interface [polypeptide binding]; other site 318167008715 HemN family oxidoreductase; Provisional; Region: PRK05660 318167008716 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 318167008717 FeS/SAM binding site; other site 318167008718 HemN C-terminal domain; Region: HemN_C; pfam06969 318167008719 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 318167008720 LysR family transcriptional regulator; Provisional; Region: PRK14997 318167008721 Helix-turn-helix domains; Region: HTH; cl00088 318167008722 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 318167008723 putative effector binding pocket; other site 318167008724 dimerization interface [polypeptide binding]; other site 318167008725 Protein of unknown function (DUF2884); Region: DUF2884; cl08135 318167008726 Glutaminase; Region: Glutaminase; cl00907 318167008727 Protein with unknown function (DUF469); Region: DUF469; cl01237 318167008728 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 318167008729 S-adenosylmethionine binding site [chemical binding]; other site 318167008730 adenine DNA glycosylase; Provisional; Region: PRK10880 318167008731 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 318167008732 minor groove reading motif; other site 318167008733 helix-hairpin-helix signature motif; other site 318167008734 substrate binding pocket [chemical binding]; other site 318167008735 active site 318167008736 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 318167008737 DNA binding and oxoG recognition site [nucleotide binding] 318167008738 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 318167008739 YceI-like domain; Region: YceI; cl01001 318167008740 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 318167008741 SapC; Region: SapC; pfam07277 318167008742 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 318167008743 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167008744 Nitrogen regulatory protein P-II; Region: P-II; cl00412 318167008745 Nitrogen regulatory protein P-II; Region: P-II; smart00938 318167008746 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 318167008747 Type II transport protein GspH; Region: GspH; pfam12019 318167008748 Type II transport protein GspH; Region: GspH; pfam12019 318167008749 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 318167008750 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 318167008751 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 318167008752 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 318167008753 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 318167008754 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 318167008755 LytB protein; Region: LYTB; cl00507 318167008756 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 318167008757 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 318167008758 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 318167008759 lipoprotein signal peptidase; Provisional; Region: PRK14787 318167008760 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 318167008761 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318167008762 active site 318167008763 HIGH motif; other site 318167008764 nucleotide binding site [chemical binding]; other site 318167008765 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 318167008766 active site 318167008767 KMSKS motif; other site 318167008768 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 318167008769 tRNA binding surface [nucleotide binding]; other site 318167008770 anticodon binding site; other site 318167008771 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 318167008772 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 318167008773 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 318167008774 active site 318167008775 Riboflavin kinase; Region: Flavokinase; cl03312 318167008776 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 318167008777 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 318167008778 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 318167008779 dimerization interface [polypeptide binding]; other site 318167008780 putative DNA binding site [nucleotide binding]; other site 318167008781 putative Zn2+ binding site [ion binding]; other site 318167008782 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 318167008783 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 318167008784 PA/protease or protease-like domain interface [polypeptide binding]; other site 318167008785 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 318167008786 metal binding site [ion binding]; metal-binding site 318167008787 Protein of unknown function (DUF328); Region: DUF328; cl01143 318167008788 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 318167008789 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 318167008790 putative phosphoketolase; Provisional; Region: PRK05261 318167008791 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 318167008792 TPP-binding site; other site 318167008793 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 318167008794 XFP C-terminal domain; Region: XFP_C; pfam09363 318167008795 outer membrane protein A; Reviewed; Region: PRK10808 318167008796 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 318167008797 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167008798 ligand binding site [chemical binding]; other site 318167008799 transaldolase-like protein; Provisional; Region: PTZ00411 318167008800 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 318167008801 active site 318167008802 dimer interface [polypeptide binding]; other site 318167008803 catalytic residue [active] 318167008804 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 318167008805 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 318167008806 active site 318167008807 dimer interface [polypeptide binding]; other site 318167008808 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 318167008809 dimer interface [polypeptide binding]; other site 318167008810 active site 318167008811 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 318167008812 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 318167008813 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 318167008814 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 318167008815 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318167008816 catalytic residue [active] 318167008817 homoserine kinase; Provisional; Region: PRK01212 318167008818 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 318167008819 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 318167008820 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 318167008821 putative catalytic residues [active] 318167008822 putative nucleotide binding site [chemical binding]; other site 318167008823 putative aspartate binding site [chemical binding]; other site 318167008824 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 318167008825 dimer interface [polypeptide binding]; other site 318167008826 putative threonine allosteric regulatory site; other site 318167008827 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 318167008828 putative threonine allosteric regulatory site; other site 318167008829 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167008830 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 318167008831 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 318167008832 Helix-turn-helix domains; Region: HTH; cl00088 318167008833 Cytochrome C'; Region: Cytochrom_C_2; cl01610 318167008834 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 318167008835 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 318167008836 30S subunit binding site; other site 318167008837 Chorismate mutase type II; Region: CM_2; cl00693 318167008838 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 318167008839 Prephenate dehydratase; Region: PDT; pfam00800 318167008840 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 318167008841 putative L-Phe binding site [chemical binding]; other site 318167008842 NeuB family; Region: NeuB; cl00496 318167008843 Predicted membrane protein [Function unknown]; Region: COG3671 318167008844 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 318167008845 Chorismate mutase type II; Region: CM_2; cl00693 318167008846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167008847 NeuB family; Region: NeuB; cl00496 318167008848 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 318167008849 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 318167008850 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 318167008851 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 318167008852 RimM N-terminal domain; Region: RimM; pfam01782 318167008853 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 318167008854 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 318167008855 signal recognition particle protein; Provisional; Region: PRK10867 318167008856 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 318167008857 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 318167008858 P loop; other site 318167008859 GTP binding site [chemical binding]; other site 318167008860 Signal peptide binding domain; Region: SRP_SPB; pfam02978 318167008861 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 318167008862 hypothetical protein; Provisional; Region: PRK11573 318167008863 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 318167008864 Transporter associated domain; Region: CorC_HlyC; cl08393 318167008865 Protein of unknown function (DUF962); Region: DUF962; cl01879 318167008866 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 318167008867 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 318167008868 active site 318167008869 hydrophilic channel; other site 318167008870 dimerization interface [polypeptide binding]; other site 318167008871 catalytic residues [active] 318167008872 active site lid [active] 318167008873 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 318167008874 Recombination protein O N terminal; Region: RecO_N; cl15812 318167008875 Recombination protein O C terminal; Region: RecO_C; pfam02565 318167008876 GTPase Era; Reviewed; Region: era; PRK00089 318167008877 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 318167008878 G1 box; other site 318167008879 GTP/Mg2+ binding site [chemical binding]; other site 318167008880 Switch I region; other site 318167008881 G2 box; other site 318167008882 Switch II region; other site 318167008883 G3 box; other site 318167008884 G4 box; other site 318167008885 G5 box; other site 318167008886 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 318167008887 ribonuclease III; Reviewed; Region: rnc; PRK00102 318167008888 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 318167008889 dimerization interface [polypeptide binding]; other site 318167008890 active site 318167008891 metal binding site [ion binding]; metal-binding site 318167008892 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 318167008893 dsRNA binding site [nucleotide binding]; other site 318167008894 signal peptidase I; Provisional; Region: PRK10861 318167008895 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 318167008896 Catalytic site [active] 318167008897 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 318167008898 GTP-binding protein LepA; Provisional; Region: PRK05433 318167008899 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 318167008900 G1 box; other site 318167008901 putative GEF interaction site [polypeptide binding]; other site 318167008902 GTP/Mg2+ binding site [chemical binding]; other site 318167008903 Switch I region; other site 318167008904 G2 box; other site 318167008905 G3 box; other site 318167008906 Switch II region; other site 318167008907 G4 box; other site 318167008908 G5 box; other site 318167008909 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 318167008910 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 318167008911 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 318167008912 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 318167008913 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 318167008914 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 318167008915 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 318167008916 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 318167008917 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 318167008918 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 318167008919 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167008920 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 318167008921 DNA binding residues [nucleotide binding] 318167008922 L-aspartate oxidase; Provisional; Region: PRK09077 318167008923 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167008924 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 318167008925 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 318167008926 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 318167008927 Helix-turn-helix domains; Region: HTH; cl00088 318167008928 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 318167008929 dimerization interface [polypeptide binding]; other site 318167008930 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 318167008931 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 318167008932 dimerization interface [polypeptide binding]; other site 318167008933 active site 318167008934 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 318167008935 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 318167008936 GAF domain; Region: GAF; cl15785 318167008937 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 318167008938 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 318167008939 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 318167008940 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 318167008941 putative active site [active] 318167008942 Ap4A binding site [chemical binding]; other site 318167008943 nudix motif; other site 318167008944 putative metal binding site [ion binding]; other site 318167008945 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 318167008946 putative DNA-binding cleft [nucleotide binding]; other site 318167008947 putative DNA clevage site; other site 318167008948 molecular lever; other site 318167008949 cyclase homology domain; Region: CHD; cd07302 318167008950 nucleotidyl binding site; other site 318167008951 metal binding site [ion binding]; metal-binding site 318167008952 dimer interface [polypeptide binding]; other site 318167008953 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 318167008954 Helix-turn-helix domains; Region: HTH; cl00088 318167008955 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 318167008956 dimerization interface [polypeptide binding]; other site 318167008957 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 318167008958 radical SAM protein, TIGR01212 family; Region: TIGR01212 318167008959 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 318167008960 FeS/SAM binding site; other site 318167008961 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 318167008962 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 318167008963 active site 318167008964 dimer interface [polypeptide binding]; other site 318167008965 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 318167008966 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 318167008967 active site 318167008968 FMN binding site [chemical binding]; other site 318167008969 substrate binding site [chemical binding]; other site 318167008970 3Fe-4S cluster binding site [ion binding]; other site 318167008971 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 318167008972 domain interface; other site 318167008973 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 318167008974 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 318167008975 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167008976 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167008977 Flagellar protein YcgR; Region: YcgR_2; pfam12945 318167008978 PilZ domain; Region: PilZ; cl01260 318167008979 Cytochrome c; Region: Cytochrom_C; cl11414 318167008980 Iron permease FTR1 family; Region: FTR1; cl00475 318167008981 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318167008982 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 318167008983 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 318167008984 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 318167008985 mercuric reductase; Validated; Region: PRK06370 318167008986 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167008987 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167008988 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 318167008989 Protein of unknown function, DUF547; Region: DUF547; pfam04784 318167008990 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 318167008991 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 318167008992 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 318167008993 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 318167008994 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 318167008995 dimer interface [polypeptide binding]; other site 318167008996 conserved gate region; other site 318167008997 putative PBP binding loops; other site 318167008998 ABC-ATPase subunit interface; other site 318167008999 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167009000 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 318167009001 Walker A/P-loop; other site 318167009002 ATP binding site [chemical binding]; other site 318167009003 Q-loop/lid; other site 318167009004 ABC transporter signature motif; other site 318167009005 Walker B; other site 318167009006 D-loop; other site 318167009007 H-loop/switch region; other site 318167009008 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 318167009009 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 318167009010 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 318167009011 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 318167009012 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 318167009013 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 318167009014 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 318167009015 CobD/Cbib protein; Region: CobD_Cbib; cl00561 318167009016 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 318167009017 hypothetical protein; Provisional; Region: PRK10578 318167009018 UPF0126 domain; Region: UPF0126; pfam03458 318167009019 UPF0126 domain; Region: UPF0126; pfam03458 318167009020 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 318167009021 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 318167009022 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 318167009023 active site 318167009024 HIGH motif; other site 318167009025 dimer interface [polypeptide binding]; other site 318167009026 KMSKS motif; other site 318167009027 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 318167009028 RNA binding surface [nucleotide binding]; other site 318167009029 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 318167009030 putative peptidase; Provisional; Region: PRK11649 318167009031 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 318167009032 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 318167009033 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 318167009034 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 318167009035 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 318167009036 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 318167009037 Cl- selectivity filter; other site 318167009038 Cl- binding residues [ion binding]; other site 318167009039 pore gating glutamate residue; other site 318167009040 dimer interface [polypeptide binding]; other site 318167009041 aspartate carbamoyltransferase; Provisional; Region: PRK08192 318167009042 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 318167009043 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167009044 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 318167009045 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 318167009046 inhibitor-cofactor binding pocket; inhibition site 318167009047 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167009048 catalytic residue [active] 318167009049 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 318167009050 transmembrane helices; other site 318167009051 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 318167009052 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 318167009053 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 318167009054 Walker A motif; other site 318167009055 ATP binding site [chemical binding]; other site 318167009056 Walker B motif; other site 318167009057 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 318167009058 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 318167009059 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 318167009060 active site 318167009061 NTP binding site [chemical binding]; other site 318167009062 metal binding triad [ion binding]; metal-binding site 318167009063 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 318167009064 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 318167009065 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 318167009066 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 318167009067 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167009068 Bacitracin resistance protein BacA; Region: BacA; cl00858 318167009069 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 318167009070 catalytic center binding site [active] 318167009071 ATP binding site [chemical binding]; other site 318167009072 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 318167009073 homooctamer interface [polypeptide binding]; other site 318167009074 active site 318167009075 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 318167009076 UGMP family protein; Validated; Region: PRK09604 318167009077 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 318167009078 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 318167009079 GatB domain; Region: GatB_Yqey; cl11497 318167009080 DNA primase; Validated; Region: dnaG; PRK05667 318167009081 CHC2 zinc finger; Region: zf-CHC2; cl15369 318167009082 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 318167009083 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 318167009084 active site 318167009085 metal binding site [ion binding]; metal-binding site 318167009086 interdomain interaction site; other site 318167009087 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 318167009088 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 318167009089 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 318167009090 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 318167009091 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 318167009092 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 318167009093 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167009094 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 318167009095 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 318167009096 DNA binding residues [nucleotide binding] 318167009097 Cache domain; Region: Cache_1; pfam02743 318167009098 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 318167009099 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167009100 metal binding site [ion binding]; metal-binding site 318167009101 active site 318167009102 I-site; other site 318167009103 Protein of unknown function, DUF599; Region: DUF599; cl01575 318167009104 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 318167009105 active site 318167009106 Cache domain; Region: Cache_1; pfam02743 318167009107 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 318167009108 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167009109 dimer interface [polypeptide binding]; other site 318167009110 putative CheW interface [polypeptide binding]; other site 318167009111 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 318167009112 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 318167009113 inhibitor-cofactor binding pocket; inhibition site 318167009114 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167009115 catalytic residue [active] 318167009116 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318167009117 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 318167009118 tetramerization interface [polypeptide binding]; other site 318167009119 NAD(P) binding site [chemical binding]; other site 318167009120 catalytic residues [active] 318167009121 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167009122 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 318167009123 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 318167009124 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 318167009125 dimer interface [polypeptide binding]; other site 318167009126 conserved gate region; other site 318167009127 putative PBP binding loops; other site 318167009128 ABC-ATPase subunit interface; other site 318167009129 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 318167009130 dimer interface [polypeptide binding]; other site 318167009131 conserved gate region; other site 318167009132 putative PBP binding loops; other site 318167009133 ABC-ATPase subunit interface; other site 318167009134 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 318167009135 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167009136 Walker A/P-loop; other site 318167009137 ATP binding site [chemical binding]; other site 318167009138 Q-loop/lid; other site 318167009139 ABC transporter signature motif; other site 318167009140 Walker B; other site 318167009141 D-loop; other site 318167009142 H-loop/switch region; other site 318167009143 TOBE domain; Region: TOBE_2; cl01440 318167009144 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 318167009145 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 318167009146 putative aminotransferase; Validated; Region: PRK07480 318167009147 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 318167009148 inhibitor-cofactor binding pocket; inhibition site 318167009149 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167009150 catalytic residue [active] 318167009151 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 318167009152 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 318167009153 Peptidase C26; Region: Peptidase_C26; pfam07722 318167009154 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 318167009155 catalytic triad [active] 318167009156 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 318167009157 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 318167009158 non-specific DNA binding site [nucleotide binding]; other site 318167009159 salt bridge; other site 318167009160 sequence-specific DNA binding site [nucleotide binding]; other site 318167009161 Cupin domain; Region: Cupin_2; cl09118 318167009162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167009163 FAD dependent oxidoreductase; Region: DAO; pfam01266 318167009164 Helix-turn-helix domains; Region: HTH; cl00088 318167009165 putative transposase OrfB; Reviewed; Region: PHA02517 318167009166 HTH-like domain; Region: HTH_21; pfam13276 318167009167 Integrase core domain; Region: rve; cl01316 318167009168 Integrase core domain; Region: rve_3; cl15866 318167009169 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 318167009170 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 318167009171 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 318167009172 active site residue [active] 318167009173 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 318167009174 active site residue [active] 318167009175 VanZ like family; Region: VanZ; cl01971 318167009176 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 318167009177 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 318167009178 NAD(P) binding site [chemical binding]; other site 318167009179 catalytic residues [active] 318167009180 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 318167009181 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 318167009182 inhibitor-cofactor binding pocket; inhibition site 318167009183 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167009184 catalytic residue [active] 318167009185 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 318167009186 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318167009187 tetrameric interface [polypeptide binding]; other site 318167009188 NAD binding site [chemical binding]; other site 318167009189 catalytic residues [active] 318167009190 Cupin domain; Region: Cupin_2; cl09118 318167009191 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 318167009192 Protein of unknown function (DUF3634); Region: DUF3634; pfam12321 318167009193 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 318167009194 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 318167009195 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 318167009196 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 318167009197 S-adenosylmethionine binding site [chemical binding]; other site 318167009198 Uncharacterized conserved protein [Function unknown]; Region: COG3496 318167009199 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 318167009200 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167009201 short chain dehydrogenase; Provisional; Region: PRK06101 318167009202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167009203 NAD(P) binding site [chemical binding]; other site 318167009204 active site 318167009205 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 318167009206 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 318167009207 NnrS protein; Region: NnrS; cl01258 318167009208 DNA photolyase; Region: DNA_photolyase; pfam00875 318167009209 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 318167009210 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 318167009211 Protein of unknown function (DUF523); Region: DUF523; cl00733 318167009212 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 318167009213 Domain of unknown function (DUF368); Region: DUF368; cl00893 318167009214 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 318167009215 CoenzymeA binding site [chemical binding]; other site 318167009216 subunit interaction site [polypeptide binding]; other site 318167009217 PHB binding site; other site 318167009218 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 318167009219 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 318167009220 Predicted membrane protein [Function unknown]; Region: COG2311 318167009221 Protein of unknown function (DUF418); Region: DUF418; cl12135 318167009222 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 318167009223 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 318167009224 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 318167009225 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 318167009226 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 318167009227 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 318167009228 active site 318167009229 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 318167009230 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 318167009231 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 318167009232 active site 318167009233 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 318167009234 alternate F1F0 ATPase, F1 subunit beta; Region: alt_F1F0_F1_bet; TIGR03305 318167009235 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 318167009236 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 318167009237 alpha subunit interaction interface [polypeptide binding]; other site 318167009238 Walker A motif; other site 318167009239 ATP binding site [chemical binding]; other site 318167009240 Walker B motif; other site 318167009241 inhibitor binding site; inhibition site 318167009242 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 318167009243 F0F1 ATP synthase subunit epsilon; Validated; Region: PRK06228 318167009244 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 318167009245 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 318167009246 N-ATPase, AtpR subunit; Region: AtpR; cl11871 318167009247 ATP synthase A chain; Region: ATP-synt_A; cl00413 318167009248 ATP synthase subunit C; Region: ATP-synt_C; cl00466 318167009249 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 318167009250 Plant ATP synthase F0; Region: YMF19; cl07975 318167009251 alternate F1F0 ATPase, F1 subunit alpha; Region: alt_F1F0_F1_al; TIGR03324 318167009252 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 318167009253 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 318167009254 beta subunit interaction interface [polypeptide binding]; other site 318167009255 Walker A motif; other site 318167009256 ATP binding site [chemical binding]; other site 318167009257 Walker B motif; other site 318167009258 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 318167009259 ATP synthase; Region: ATP-synt; cl00365 318167009260 MltA-interacting protein MipA; Region: MipA; cl01504 318167009261 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 318167009262 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 318167009263 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 318167009264 dimer interface [polypeptide binding]; other site 318167009265 phosphorylation site [posttranslational modification] 318167009266 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 318167009267 ATP binding site [chemical binding]; other site 318167009268 Mg2+ binding site [ion binding]; other site 318167009269 G-X-G motif; other site 318167009270 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 318167009271 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167009272 active site 318167009273 phosphorylation site [posttranslational modification] 318167009274 intermolecular recognition site; other site 318167009275 dimerization interface [polypeptide binding]; other site 318167009276 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 318167009277 DNA binding site [nucleotide binding] 318167009278 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 318167009279 MltA-interacting protein MipA; Region: MipA; cl01504 318167009280 Transcriptional regulators [Transcription]; Region: MarR; COG1846 318167009281 Helix-turn-helix domains; Region: HTH; cl00088 318167009282 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 318167009283 Cupin domain; Region: Cupin_2; cl09118 318167009284 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 318167009285 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 318167009286 ATP binding site [chemical binding]; other site 318167009287 Mg++ binding site [ion binding]; other site 318167009288 motif III; other site 318167009289 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 318167009290 nucleotide binding region [chemical binding]; other site 318167009291 ATP-binding site [chemical binding]; other site 318167009292 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 318167009293 putative catalytic residues [active] 318167009294 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 318167009295 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167009296 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318167009297 glycerate dehydrogenase; Provisional; Region: PRK06487 318167009298 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167009299 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 318167009300 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 318167009301 putative metal binding site [ion binding]; other site 318167009302 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 318167009303 HSP70 interaction site [polypeptide binding]; other site 318167009304 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 318167009305 Substrate binding site; other site 318167009306 metal-binding site 318167009307 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167009308 Phosphotransferase enzyme family; Region: APH; pfam01636 318167009309 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 318167009310 OstA-like protein; Region: OstA; cl00844 318167009311 Organic solvent tolerance protein; Region: OstA_C; pfam04453 318167009312 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 318167009313 SurA N-terminal domain; Region: SurA_N_3; cl07813 318167009314 PPIC-type PPIASE domain; Region: Rotamase; cl08278 318167009315 PPIC-type PPIASE domain; Region: Rotamase; cl08278 318167009316 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 318167009317 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 318167009318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167009319 Protein of unknown function (DUF525); Region: DUF525; cl01119 318167009320 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 318167009321 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 318167009322 active site 318167009323 metal binding site [ion binding]; metal-binding site 318167009324 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 318167009325 dimerization interface [polypeptide binding]; other site 318167009326 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167009327 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167009328 dimer interface [polypeptide binding]; other site 318167009329 putative CheW interface [polypeptide binding]; other site 318167009330 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 318167009331 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 318167009332 NADP+ binding site [chemical binding]; other site 318167009333 folate binding site [chemical binding]; other site 318167009334 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 318167009335 Uncharacterized conserved protein [Function unknown]; Region: COG2966 318167009336 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 318167009337 GTPase CgtA; Reviewed; Region: obgE; PRK12298 318167009338 GTP1/OBG; Region: GTP1_OBG; pfam01018 318167009339 Obg GTPase; Region: Obg; cd01898 318167009340 G1 box; other site 318167009341 GTP/Mg2+ binding site [chemical binding]; other site 318167009342 Switch I region; other site 318167009343 G2 box; other site 318167009344 G3 box; other site 318167009345 Switch II region; other site 318167009346 G4 box; other site 318167009347 G5 box; other site 318167009348 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 318167009349 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 318167009350 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 318167009351 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 318167009352 substrate binding pocket [chemical binding]; other site 318167009353 chain length determination region; other site 318167009354 substrate-Mg2+ binding site; other site 318167009355 catalytic residues [active] 318167009356 aspartate-rich region 1; other site 318167009357 active site lid residues [active] 318167009358 aspartate-rich region 2; other site 318167009359 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 318167009360 ligand binding site [chemical binding]; other site 318167009361 active site 318167009362 UGI interface [polypeptide binding]; other site 318167009363 catalytic site [active] 318167009364 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 318167009365 LysE type translocator; Region: LysE; cl00565 318167009366 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 318167009367 DsbD alpha interface [polypeptide binding]; other site 318167009368 catalytic residues [active] 318167009369 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318167009370 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 318167009371 N-terminal plug; other site 318167009372 ligand-binding site [chemical binding]; other site 318167009373 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 318167009374 AMP-binding enzyme; Region: AMP-binding; cl15778 318167009375 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167009376 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 318167009377 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318167009378 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167009379 Walker A/P-loop; other site 318167009380 ATP binding site [chemical binding]; other site 318167009381 Q-loop/lid; other site 318167009382 ABC transporter signature motif; other site 318167009383 Walker B; other site 318167009384 D-loop; other site 318167009385 H-loop/switch region; other site 318167009386 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 318167009387 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 318167009388 S-adenosylmethionine binding site [chemical binding]; other site 318167009389 Transcriptional regulators [Transcription]; Region: FadR; COG2186 318167009390 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318167009391 DNA-binding site [nucleotide binding]; DNA binding site 318167009392 FCD domain; Region: FCD; cl11656 318167009393 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 318167009394 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 318167009395 Cupin domain; Region: Cupin_2; cl09118 318167009396 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 318167009397 D-galactonate transporter; Region: 2A0114; TIGR00893 318167009398 putative substrate translocation pore; other site 318167009399 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 318167009400 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 318167009401 substrate binding site [chemical binding]; other site 318167009402 ATP binding site [chemical binding]; other site 318167009403 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 318167009404 S-adenosylmethionine binding site [chemical binding]; other site 318167009405 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 318167009406 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 318167009407 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 318167009408 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 318167009409 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 318167009410 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 318167009411 substrate binding site [chemical binding]; other site 318167009412 AmpG-related permease; Region: 2A0125; TIGR00901 318167009413 muropeptide transporter; Validated; Region: ampG; PRK11010 318167009414 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 318167009415 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 318167009416 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 318167009417 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 318167009418 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 318167009419 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 318167009420 LysE type translocator; Region: LysE; cl00565 318167009421 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 318167009422 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 318167009423 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 318167009424 dimerization interface [polypeptide binding]; other site 318167009425 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 318167009426 dimer interface [polypeptide binding]; other site 318167009427 phosphorylation site [posttranslational modification] 318167009428 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 318167009429 ATP binding site [chemical binding]; other site 318167009430 Mg2+ binding site [ion binding]; other site 318167009431 G-X-G motif; other site 318167009432 Response regulator receiver domain; Region: Response_reg; pfam00072 318167009433 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167009434 active site 318167009435 phosphorylation site [posttranslational modification] 318167009436 intermolecular recognition site; other site 318167009437 dimerization interface [polypeptide binding]; other site 318167009438 NMT1-like family; Region: NMT1_2; cl15260 318167009439 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 318167009440 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 318167009441 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 318167009442 heme binding site [chemical binding]; other site 318167009443 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 318167009444 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 318167009445 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 318167009446 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 318167009447 4Fe-4S binding domain; Region: Fer4; cl02805 318167009448 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 318167009449 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 318167009450 molybdopterin cofactor binding site; other site 318167009451 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 318167009452 putative molybdopterin cofactor binding site; other site 318167009453 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 318167009454 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 318167009455 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 318167009456 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 318167009457 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 318167009458 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 318167009459 active site flap/lid [active] 318167009460 nucleophilic elbow; other site 318167009461 catalytic triad [active] 318167009462 FOG: CBS domain [General function prediction only]; Region: COG0517 318167009463 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 318167009464 Domon-like ligand-binding domains; Region: DOMON_like; cd00241 318167009465 putative ligand binding site [chemical binding]; other site 318167009466 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 318167009467 active site 318167009468 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167009469 Helix-turn-helix domains; Region: HTH; cl00088 318167009470 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 318167009471 substrate binding pocket [chemical binding]; other site 318167009472 dimerization interface [polypeptide binding]; other site 318167009473 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 318167009474 tetramer interface [polypeptide binding]; other site 318167009475 active site 318167009476 Mg2+/Mn2+ binding site [ion binding]; other site 318167009477 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 318167009478 Restriction endonuclease; Region: Mrr_cat; cl00516 318167009479 beta-RFAP synthase; Region: beta_RFAP_syn; TIGR00144 318167009480 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 318167009481 putative active site [active] 318167009482 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167009483 Helix-turn-helix domains; Region: HTH; cl00088 318167009484 putative transposase OrfB; Reviewed; Region: PHA02517 318167009485 HTH-like domain; Region: HTH_21; pfam13276 318167009486 Integrase core domain; Region: rve; cl01316 318167009487 Integrase core domain; Region: rve_3; cl15866 318167009488 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318167009489 glycine dehydrogenase; Provisional; Region: PRK05367 318167009490 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 318167009491 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318167009492 catalytic residue [active] 318167009493 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 318167009494 tetramer interface [polypeptide binding]; other site 318167009495 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167009496 catalytic residue [active] 318167009497 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 318167009498 lipoyl attachment site [posttranslational modification]; other site 318167009499 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 318167009500 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 318167009501 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167009502 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 318167009503 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167009504 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 318167009505 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 318167009506 Cell division protein ZapA; Region: ZapA; cl01146 318167009507 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 318167009508 catalytic site [active] 318167009509 active site 318167009510 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 318167009511 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 318167009512 Zn binding sites [ion binding]; other site 318167009513 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 318167009514 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 318167009515 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 318167009516 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 318167009517 homodimer interface [polypeptide binding]; other site 318167009518 substrate-cofactor binding pocket; other site 318167009519 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167009520 catalytic residue [active] 318167009521 dihydromonapterin reductase; Provisional; Region: PRK06483 318167009522 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167009523 NAD(P) binding site [chemical binding]; other site 318167009524 active site 318167009525 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 318167009526 active site 318167009527 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 318167009528 homooctamer interface [polypeptide binding]; other site 318167009529 active site 318167009530 Protein of unknown function, DUF393; Region: DUF393; cl01136 318167009531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167009532 NAD(P) binding site [chemical binding]; other site 318167009533 active site 318167009534 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167009535 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 318167009536 NAD(P) binding site [chemical binding]; other site 318167009537 active site 318167009538 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 318167009539 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 318167009540 substrate binding pocket [chemical binding]; other site 318167009541 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 318167009542 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318167009543 putative substrate translocation pore; other site 318167009544 Sodium:solute symporter family; Region: SSF; cl00456 318167009545 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 318167009546 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 318167009547 PAS fold; Region: PAS_7; pfam12860 318167009548 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 318167009549 dimer interface [polypeptide binding]; other site 318167009550 phosphorylation site [posttranslational modification] 318167009551 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 318167009552 ATP binding site [chemical binding]; other site 318167009553 Mg2+ binding site [ion binding]; other site 318167009554 G-X-G motif; other site 318167009555 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 318167009556 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 318167009557 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318167009558 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167009559 active site 318167009560 phosphorylation site [posttranslational modification] 318167009561 intermolecular recognition site; other site 318167009562 dimerization interface [polypeptide binding]; other site 318167009563 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 318167009564 DNA binding residues [nucleotide binding] 318167009565 dimerization interface [polypeptide binding]; other site 318167009566 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318167009567 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 318167009568 N-terminal plug; other site 318167009569 ligand-binding site [chemical binding]; other site 318167009570 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 318167009571 malate dehydrogenase; Provisional; Region: PRK05086 318167009572 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 318167009573 NAD binding site [chemical binding]; other site 318167009574 dimerization interface [polypeptide binding]; other site 318167009575 Substrate binding site [chemical binding]; other site 318167009576 putative acetyltransferase; Provisional; Region: PRK03624 318167009577 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167009578 Coenzyme A binding pocket [chemical binding]; other site 318167009579 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 318167009580 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 318167009581 RNA/DNA hybrid binding site [nucleotide binding]; other site 318167009582 active site 318167009583 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 318167009584 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 318167009585 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167009586 Coenzyme A binding pocket [chemical binding]; other site 318167009587 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 318167009588 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 318167009589 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 318167009590 active site 318167009591 catalytic tetrad [active] 318167009592 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 318167009593 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 318167009594 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318167009595 catalytic residue [active] 318167009596 Fe-S metabolism associated domain; Region: SufE; cl00951 318167009597 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 318167009598 active site 318167009599 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 318167009600 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 318167009601 ligand-binding site [chemical binding]; other site 318167009602 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 318167009603 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 318167009604 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 318167009605 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 318167009606 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 318167009607 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 318167009608 CysD dimerization site [polypeptide binding]; other site 318167009609 G1 box; other site 318167009610 putative GEF interaction site [polypeptide binding]; other site 318167009611 GTP/Mg2+ binding site [chemical binding]; other site 318167009612 Switch I region; other site 318167009613 G2 box; other site 318167009614 G3 box; other site 318167009615 Switch II region; other site 318167009616 G4 box; other site 318167009617 G5 box; other site 318167009618 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 318167009619 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 318167009620 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 318167009621 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 318167009622 Active Sites [active] 318167009623 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 318167009624 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 318167009625 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 318167009626 dimerization interface [polypeptide binding]; other site 318167009627 substrate binding site [chemical binding]; other site 318167009628 active site 318167009629 calcium binding site [ion binding]; other site 318167009630 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 318167009631 Active Sites [active] 318167009632 sulfite reductase subunit beta; Provisional; Region: PRK13504 318167009633 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 318167009634 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 318167009635 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 318167009636 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 318167009637 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 318167009638 FAD binding pocket [chemical binding]; other site 318167009639 FAD binding motif [chemical binding]; other site 318167009640 catalytic residues [active] 318167009641 NAD binding pocket [chemical binding]; other site 318167009642 phosphate binding motif [ion binding]; other site 318167009643 beta-alpha-beta structure motif; other site 318167009644 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 318167009645 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 318167009646 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167009647 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 318167009648 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 318167009649 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 318167009650 PAS fold; Region: PAS_3; pfam08447 318167009651 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 318167009652 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167009653 metal binding site [ion binding]; metal-binding site 318167009654 active site 318167009655 I-site; other site 318167009656 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 318167009657 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 318167009658 Helix-turn-helix domains; Region: HTH; cl00088 318167009659 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 318167009660 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 318167009661 putative ribose interaction site [chemical binding]; other site 318167009662 putative ADP binding site [chemical binding]; other site 318167009663 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318167009664 active site 318167009665 HIGH motif; other site 318167009666 nucleotide binding site [chemical binding]; other site 318167009667 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 318167009668 putative acyl-acceptor binding pocket; other site 318167009669 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 318167009670 putative FMN binding site [chemical binding]; other site 318167009671 putative dimer interface [polypeptide binding]; other site 318167009672 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 318167009673 NADH(P)-binding; Region: NAD_binding_10; pfam13460 318167009674 NAD binding site [chemical binding]; other site 318167009675 active site 318167009676 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 318167009677 DNA binding residues [nucleotide binding] 318167009678 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 318167009679 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 318167009680 catalytic loop [active] 318167009681 iron binding site [ion binding]; other site 318167009682 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 318167009683 FAD binding pocket [chemical binding]; other site 318167009684 FAD binding motif [chemical binding]; other site 318167009685 phosphate binding motif [ion binding]; other site 318167009686 beta-alpha-beta structure motif; other site 318167009687 NAD binding pocket [chemical binding]; other site 318167009688 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 318167009689 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 318167009690 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 318167009691 FMN-binding domain; Region: FMN_bind; cl01081 318167009692 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 318167009693 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 318167009694 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 318167009695 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 318167009696 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 318167009697 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318167009698 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167009699 Walker A/P-loop; other site 318167009700 ATP binding site [chemical binding]; other site 318167009701 Q-loop/lid; other site 318167009702 ABC transporter signature motif; other site 318167009703 Walker B; other site 318167009704 D-loop; other site 318167009705 H-loop/switch region; other site 318167009706 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 318167009707 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 318167009708 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167009709 Walker A/P-loop; other site 318167009710 ATP binding site [chemical binding]; other site 318167009711 Q-loop/lid; other site 318167009712 ABC transporter signature motif; other site 318167009713 Walker B; other site 318167009714 D-loop; other site 318167009715 H-loop/switch region; other site 318167009716 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 318167009717 Protein of unknown function (DUF3626); Region: DUF3626; pfam12294 318167009718 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 318167009719 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 318167009720 ATP binding site [chemical binding]; other site 318167009721 Mg++ binding site [ion binding]; other site 318167009722 motif III; other site 318167009723 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 318167009724 nucleotide binding region [chemical binding]; other site 318167009725 ATP-binding site [chemical binding]; other site 318167009726 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 318167009727 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 318167009728 ATP binding site [chemical binding]; other site 318167009729 Mg++ binding site [ion binding]; other site 318167009730 motif III; other site 318167009731 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 318167009732 nucleotide binding region [chemical binding]; other site 318167009733 ATP-binding site [chemical binding]; other site 318167009734 DbpA RNA binding domain; Region: DbpA; pfam03880 318167009735 Pirin-related protein [General function prediction only]; Region: COG1741 318167009736 Cupin domain; Region: Cupin_2; cl09118 318167009737 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 318167009738 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 318167009739 PAS fold; Region: PAS_3; pfam08447 318167009740 putative active site [active] 318167009741 heme pocket [chemical binding]; other site 318167009742 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167009743 dimer interface [polypeptide binding]; other site 318167009744 putative CheW interface [polypeptide binding]; other site 318167009745 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 318167009746 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 318167009747 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 318167009748 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318167009749 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 318167009750 N-terminal plug; other site 318167009751 ligand-binding site [chemical binding]; other site 318167009752 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167009753 metal binding site [ion binding]; metal-binding site 318167009754 active site 318167009755 I-site; other site 318167009756 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 318167009757 ABC-2 type transporter; Region: ABC2_membrane; cl11417 318167009758 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 318167009759 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167009760 Walker A/P-loop; other site 318167009761 ATP binding site [chemical binding]; other site 318167009762 Q-loop/lid; other site 318167009763 ABC transporter signature motif; other site 318167009764 Walker B; other site 318167009765 D-loop; other site 318167009766 H-loop/switch region; other site 318167009767 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318167009768 active site 318167009769 aromatic acid decarboxylase; Validated; Region: PRK05920 318167009770 Flavoprotein; Region: Flavoprotein; cl08021 318167009771 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 318167009772 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 318167009773 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318167009774 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318167009775 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 318167009776 AzlC protein; Region: AzlC; cl00570 318167009777 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 318167009778 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 318167009779 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 318167009780 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 318167009781 structural tetrad; other site 318167009782 SlyX; Region: SlyX; cl01090 318167009783 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 318167009784 active site 318167009785 catalytic residues [active] 318167009786 metal binding site [ion binding]; metal-binding site 318167009787 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 318167009788 TolB amino-terminal domain; Region: TolB_N; cl00639 318167009789 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 318167009790 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 318167009791 Zn binding site [ion binding]; other site 318167009792 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 318167009793 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 318167009794 putative catalytic site [active] 318167009795 putative metal binding site [ion binding]; other site 318167009796 putative metal binding site [ion binding]; other site 318167009797 putative phosphate binding site [ion binding]; other site 318167009798 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 318167009799 putative catalytic site [active] 318167009800 putative phosphate binding site [ion binding]; other site 318167009801 putative metal binding site [ion binding]; other site 318167009802 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; cl15292 318167009803 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 318167009804 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 318167009805 active site 318167009806 motif I; other site 318167009807 motif II; other site 318167009808 Tryptophan-rich protein (DUF2389); Region: DUF2389; cl09726 318167009809 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 318167009810 Sel1 repeat; Region: Sel1; cl02723 318167009811 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 318167009812 Fusaric acid resistance protein family; Region: FUSC; pfam04632 318167009813 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 318167009814 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 318167009815 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 318167009816 transcriptional regulator SlyA; Provisional; Region: PRK03573 318167009817 Helix-turn-helix domains; Region: HTH; cl00088 318167009818 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 318167009819 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 318167009820 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 318167009821 GAF domain; Region: GAF; cl15785 318167009822 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 318167009823 Walker A motif; other site 318167009824 ATP binding site [chemical binding]; other site 318167009825 Walker B motif; other site 318167009826 arginine finger; other site 318167009827 L,D-transpeptidase; Provisional; Region: PRK10260 318167009828 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 318167009829 putative peptidoglycan binding site; other site 318167009830 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 318167009831 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 318167009832 Predicted ATPase [General function prediction only]; Region: COG1485 318167009833 Domain of unknown function (DUF897); Region: DUF897; cl01312 318167009834 GAF domain; Region: GAF; cl15785 318167009835 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167009836 metal binding site [ion binding]; metal-binding site 318167009837 active site 318167009838 I-site; other site 318167009839 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 318167009840 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 318167009841 metal binding triad; other site 318167009842 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 318167009843 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 318167009844 metal binding triad; other site 318167009845 spermidine synthase; Provisional; Region: PRK03612 318167009846 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 318167009847 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; cl01551 318167009848 PspA/IM30 family; Region: PspA_IM30; pfam04012 318167009849 Ion transport protein; Region: Ion_trans; pfam00520 318167009850 Ion channel; Region: Ion_trans_2; cl11596 318167009851 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 318167009852 Transglycosylase; Region: Transgly; cl07896 318167009853 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 318167009854 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 318167009855 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 318167009856 ATP binding site [chemical binding]; other site 318167009857 putative Mg++ binding site [ion binding]; other site 318167009858 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 318167009859 nucleotide binding region [chemical binding]; other site 318167009860 ATP-binding site [chemical binding]; other site 318167009861 Helicase associated domain (HA2); Region: HA2; cl04503 318167009862 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 318167009863 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167009864 metal binding site [ion binding]; metal-binding site 318167009865 active site 318167009866 I-site; other site 318167009867 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 318167009868 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 318167009869 aminopeptidase B; Provisional; Region: PRK05015 318167009870 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 318167009871 interface (dimer of trimers) [polypeptide binding]; other site 318167009872 Substrate-binding/catalytic site; other site 318167009873 Zn-binding sites [ion binding]; other site 318167009874 Sugar fermentation stimulation protein; Region: SfsA; cl00647 318167009875 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 318167009876 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318167009877 active site 318167009878 HIGH motif; other site 318167009879 nucleotide binding site [chemical binding]; other site 318167009880 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318167009881 active site 318167009882 KMSKS motif; other site 318167009883 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 318167009884 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 318167009885 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 318167009886 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 318167009887 catalytic center binding site [active] 318167009888 ATP binding site [chemical binding]; other site 318167009889 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 318167009890 oligomerization interface [polypeptide binding]; other site 318167009891 active site 318167009892 metal binding site [ion binding]; metal-binding site 318167009893 Pantoate-beta-alanine ligase; Region: PanC; cd00560 318167009894 pantoate--beta-alanine ligase; Region: panC; TIGR00018 318167009895 active site 318167009896 ATP-binding site [chemical binding]; other site 318167009897 pantoate-binding site; other site 318167009898 HXXH motif; other site 318167009899 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 318167009900 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 318167009901 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167009902 Walker A/P-loop; other site 318167009903 ATP binding site [chemical binding]; other site 318167009904 Q-loop/lid; other site 318167009905 Walker B; other site 318167009906 D-loop; other site 318167009907 H-loop/switch region; other site 318167009908 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 318167009909 ABC transporter; Region: ABC_tran_2; pfam12848 318167009910 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 318167009911 Protein of unknown function (DUF2390); Region: DUF2390; cl02376 318167009912 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 318167009913 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 318167009914 putative hydrolase; Provisional; Region: PRK10985 318167009915 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 318167009916 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167009917 active site 318167009918 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 318167009919 Sel1 repeat; Region: Sel1; cl02723 318167009920 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 318167009921 TPR motif; other site 318167009922 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 318167009923 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 318167009924 ligand binding site [chemical binding]; other site 318167009925 flexible hinge region; other site 318167009926 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 318167009927 putative switch regulator; other site 318167009928 non-specific DNA interactions [nucleotide binding]; other site 318167009929 DNA binding site [nucleotide binding] 318167009930 sequence specific DNA binding site [nucleotide binding]; other site 318167009931 putative cAMP binding site [chemical binding]; other site 318167009932 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318167009933 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167009934 active site 318167009935 phosphorylation site [posttranslational modification] 318167009936 intermolecular recognition site; other site 318167009937 dimerization interface [polypeptide binding]; other site 318167009938 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 318167009939 DNA binding site [nucleotide binding] 318167009940 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318167009941 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 318167009942 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 318167009943 dimer interface [polypeptide binding]; other site 318167009944 phosphorylation site [posttranslational modification] 318167009945 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 318167009946 ATP binding site [chemical binding]; other site 318167009947 Mg2+ binding site [ion binding]; other site 318167009948 G-X-G motif; other site 318167009949 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 318167009950 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318167009951 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 318167009952 NAD(P) binding site [chemical binding]; other site 318167009953 catalytic residues [active] 318167009954 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 318167009955 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 318167009956 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 318167009957 inhibitor-cofactor binding pocket; inhibition site 318167009958 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167009959 catalytic residue [active] 318167009960 HDOD domain; Region: HDOD; pfam08668 318167009961 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 318167009962 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 318167009963 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 318167009964 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 318167009965 glutamine binding [chemical binding]; other site 318167009966 catalytic triad [active] 318167009967 Stringent starvation protein B; Region: SspB; cl01120 318167009968 stringent starvation protein A; Provisional; Region: sspA; PRK09481 318167009969 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 318167009970 C-terminal domain interface [polypeptide binding]; other site 318167009971 putative GSH binding site (G-site) [chemical binding]; other site 318167009972 dimer interface [polypeptide binding]; other site 318167009973 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 318167009974 dimer interface [polypeptide binding]; other site 318167009975 N-terminal domain interface [polypeptide binding]; other site 318167009976 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 318167009977 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 318167009978 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 318167009979 Qi binding site; other site 318167009980 intrachain domain interface; other site 318167009981 interchain domain interface [polypeptide binding]; other site 318167009982 heme bH binding site [chemical binding]; other site 318167009983 heme bL binding site [chemical binding]; other site 318167009984 Qo binding site; other site 318167009985 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 318167009986 interchain domain interface [polypeptide binding]; other site 318167009987 intrachain domain interface; other site 318167009988 Qi binding site; other site 318167009989 Qo binding site; other site 318167009990 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 318167009991 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 318167009992 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 318167009993 [2Fe-2S] cluster binding site [ion binding]; other site 318167009994 FtsH protease regulator HflC; Provisional; Region: PRK11029 318167009995 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 318167009996 FtsH protease regulator HflK; Provisional; Region: PRK10930 318167009997 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 318167009998 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 318167009999 ParB-like nuclease domain; Region: ParBc; cl02129 318167010000 GTPase HflX; Provisional; Region: PRK11058 318167010001 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 318167010002 HflX GTPase family; Region: HflX; cd01878 318167010003 G1 box; other site 318167010004 GTP/Mg2+ binding site [chemical binding]; other site 318167010005 Switch I region; other site 318167010006 G2 box; other site 318167010007 G3 box; other site 318167010008 Switch II region; other site 318167010009 G4 box; other site 318167010010 G5 box; other site 318167010011 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 318167010012 Sm1 motif; other site 318167010013 intra - hexamer interaction site; other site 318167010014 inter - hexamer interaction site [polypeptide binding]; other site 318167010015 nucleotide binding pocket [chemical binding]; other site 318167010016 Sm2 motif; other site 318167010017 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167010018 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 318167010019 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 318167010020 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 318167010021 ATP binding site [chemical binding]; other site 318167010022 Mg2+ binding site [ion binding]; other site 318167010023 G-X-G motif; other site 318167010024 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 318167010025 ATP binding site [chemical binding]; other site 318167010026 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 318167010027 AMIN domain; Region: AMIN; pfam11741 318167010028 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 318167010029 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 318167010030 active site 318167010031 metal binding site [ion binding]; metal-binding site 318167010032 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 318167010033 putative peptidoglycan binding site; other site 318167010034 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 318167010035 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 318167010036 catalytic site [active] 318167010037 putative active site [active] 318167010038 putative substrate binding site [chemical binding]; other site 318167010039 dimer interface [polypeptide binding]; other site 318167010040 GTPase RsgA; Reviewed; Region: PRK12288 318167010041 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 318167010042 RNA binding site [nucleotide binding]; other site 318167010043 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 318167010044 GTPase/Zn-binding domain interface [polypeptide binding]; other site 318167010045 GTP/Mg2+ binding site [chemical binding]; other site 318167010046 G4 box; other site 318167010047 G5 box; other site 318167010048 G1 box; other site 318167010049 Switch I region; other site 318167010050 G2 box; other site 318167010051 G3 box; other site 318167010052 Switch II region; other site 318167010053 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 318167010054 rarD protein; Region: rarD; TIGR00688 318167010055 EamA-like transporter family; Region: EamA; cl01037 318167010056 EamA-like transporter family; Region: EamA; cl01037 318167010057 putative mechanosensitive channel protein; Provisional; Region: PRK10929 318167010058 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 318167010059 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318167010060 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 318167010061 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 318167010062 active site 318167010063 catalytic site [active] 318167010064 metal binding site [ion binding]; metal-binding site 318167010065 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167010066 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 318167010067 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 318167010068 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 318167010069 CAP-like domain; other site 318167010070 active site 318167010071 primary dimer interface [polypeptide binding]; other site 318167010072 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 318167010073 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 318167010074 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 318167010075 ATP binding site [chemical binding]; other site 318167010076 Mg2+ binding site [ion binding]; other site 318167010077 G-X-G motif; other site 318167010078 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 318167010079 anchoring element; other site 318167010080 dimer interface [polypeptide binding]; other site 318167010081 ATP binding site [chemical binding]; other site 318167010082 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 318167010083 active site 318167010084 metal binding site [ion binding]; metal-binding site 318167010085 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 318167010086 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 318167010087 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 318167010088 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 318167010089 active site 318167010090 metal binding site [ion binding]; metal-binding site 318167010091 hexamer interface [polypeptide binding]; other site 318167010092 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 318167010093 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 318167010094 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 318167010095 dimer interface [polypeptide binding]; other site 318167010096 ADP-ribose binding site [chemical binding]; other site 318167010097 active site 318167010098 nudix motif; other site 318167010099 metal binding site [ion binding]; metal-binding site 318167010100 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 318167010101 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 318167010102 Protein of unknown function (DUF461); Region: DUF461; cl01071 318167010103 enoyl-CoA hydratase; Provisional; Region: PRK06688 318167010104 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 318167010105 substrate binding site [chemical binding]; other site 318167010106 oxyanion hole (OAH) forming residues; other site 318167010107 trimer interface [polypeptide binding]; other site 318167010108 PspC domain; Region: PspC; cl00864 318167010109 Integrase core domain; Region: rve; cl01316 318167010110 Integrase core domain; Region: rve_3; cl15866 318167010111 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 318167010112 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 318167010113 FMN binding site [chemical binding]; other site 318167010114 active site 318167010115 catalytic residues [active] 318167010116 substrate binding site [chemical binding]; other site 318167010117 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 318167010118 Chemotaxis phosphatase CheX; Region: CheX; cl15816 318167010119 alanine racemase; Reviewed; Region: alr; PRK00053 318167010120 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 318167010121 active site 318167010122 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318167010123 substrate binding site [chemical binding]; other site 318167010124 catalytic residues [active] 318167010125 dimer interface [polypeptide binding]; other site 318167010126 replicative DNA helicase; Provisional; Region: PRK08006 318167010127 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 318167010128 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 318167010129 Walker A motif; other site 318167010130 ATP binding site [chemical binding]; other site 318167010131 Walker B motif; other site 318167010132 DNA binding loops [nucleotide binding] 318167010133 Peptidase S46; Region: Peptidase_S46; pfam10459 318167010134 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 318167010135 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 318167010136 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 318167010137 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 318167010138 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 318167010139 generic binding surface II; other site 318167010140 generic binding surface I; other site 318167010141 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 318167010142 Protein of unknown function, DUF481; Region: DUF481; cl01213 318167010143 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 318167010144 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318167010145 putative substrate translocation pore; other site 318167010146 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 318167010147 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 318167010148 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 318167010149 exoribonuclease R; Provisional; Region: PRK11642 318167010150 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 318167010151 RNB domain; Region: RNB; pfam00773 318167010152 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 318167010153 RNA binding site [nucleotide binding]; other site 318167010154 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 318167010155 Sel1 repeat; Region: Sel1; cl02723 318167010156 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 318167010157 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 318167010158 GDP-binding site [chemical binding]; other site 318167010159 ACT binding site; other site 318167010160 IMP binding site; other site 318167010161 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 318167010162 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 318167010163 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 318167010164 23S rRNA interface [nucleotide binding]; other site 318167010165 L3 interface [polypeptide binding]; other site 318167010166 Predicted ATPase [General function prediction only]; Region: COG1485 318167010167 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 318167010168 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 318167010169 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 318167010170 protein binding site [polypeptide binding]; other site 318167010171 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 318167010172 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 318167010173 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 318167010174 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 318167010175 protein binding site [polypeptide binding]; other site 318167010176 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 318167010177 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 318167010178 hinge; other site 318167010179 active site 318167010180 BolA-like protein; Region: BolA; cl00386 318167010181 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 318167010182 anti sigma factor interaction site; other site 318167010183 regulatory phosphorylation site [posttranslational modification]; other site 318167010184 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 318167010185 mce related protein; Region: MCE; pfam02470 318167010186 Permease; Region: Permease; cl00510 318167010187 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 318167010188 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 318167010189 Walker A/P-loop; other site 318167010190 ATP binding site [chemical binding]; other site 318167010191 Q-loop/lid; other site 318167010192 ABC transporter signature motif; other site 318167010193 Walker B; other site 318167010194 D-loop; other site 318167010195 H-loop/switch region; other site 318167010196 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 318167010197 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 318167010198 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 318167010199 putative active site [active] 318167010200 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 318167010201 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 318167010202 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 318167010203 active site 318167010204 motif I; other site 318167010205 motif II; other site 318167010206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 318167010207 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 318167010208 OstA-like protein; Region: OstA; cl00844 318167010209 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 318167010210 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 318167010211 Walker A/P-loop; other site 318167010212 ATP binding site [chemical binding]; other site 318167010213 Q-loop/lid; other site 318167010214 ABC transporter signature motif; other site 318167010215 Walker B; other site 318167010216 D-loop; other site 318167010217 H-loop/switch region; other site 318167010218 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 318167010219 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 318167010220 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 318167010221 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 318167010222 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 318167010223 30S subunit binding site; other site 318167010224 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 318167010225 active site 318167010226 phosphorylation site [posttranslational modification] 318167010227 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 318167010228 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 318167010229 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 318167010230 dimerization domain swap beta strand [polypeptide binding]; other site 318167010231 regulatory protein interface [polypeptide binding]; other site 318167010232 active site 318167010233 regulatory phosphorylation site [posttranslational modification]; other site 318167010234 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 318167010235 MgtE intracellular N domain; Region: MgtE_N; cl15244 318167010236 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 318167010237 Divalent cation transporter; Region: MgtE; cl00786 318167010238 Helix-turn-helix domains; Region: HTH; cl00088 318167010239 Response regulator receiver domain; Region: Response_reg; pfam00072 318167010240 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167010241 active site 318167010242 phosphorylation site [posttranslational modification] 318167010243 intermolecular recognition site; other site 318167010244 dimerization interface [polypeptide binding]; other site 318167010245 PAS fold; Region: PAS; pfam00989 318167010246 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 318167010247 putative active site [active] 318167010248 heme pocket [chemical binding]; other site 318167010249 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167010250 metal binding site [ion binding]; metal-binding site 318167010251 active site 318167010252 I-site; other site 318167010253 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 318167010254 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 318167010255 NMT1-like family; Region: NMT1_2; cl15260 318167010256 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 318167010257 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 318167010258 dimerization interface [polypeptide binding]; other site 318167010259 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167010260 metal binding site [ion binding]; metal-binding site 318167010261 active site 318167010262 I-site; other site 318167010263 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 318167010264 FMN reductase; Validated; Region: fre; PRK08051 318167010265 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 318167010266 FAD binding pocket [chemical binding]; other site 318167010267 FAD binding motif [chemical binding]; other site 318167010268 phosphate binding motif [ion binding]; other site 318167010269 beta-alpha-beta structure motif; other site 318167010270 NAD binding pocket [chemical binding]; other site 318167010271 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 318167010272 trimer interface [polypeptide binding]; other site 318167010273 active site 318167010274 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 318167010275 trimer interface [polypeptide binding]; other site 318167010276 active site 318167010277 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 318167010278 trimer interface [polypeptide binding]; other site 318167010279 active site 318167010280 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 318167010281 UbiA prenyltransferase family; Region: UbiA; cl00337 318167010282 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 318167010283 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167010284 Family description; Region: UvrD_C_2; cl15862 318167010285 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167010286 Helix-turn-helix domains; Region: HTH; cl00088 318167010287 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 318167010288 putative effector binding pocket; other site 318167010289 dimerization interface [polypeptide binding]; other site 318167010290 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 318167010291 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 318167010292 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 318167010293 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 318167010294 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 318167010295 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 318167010296 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 318167010297 Protein of unknown function (DUF465); Region: DUF465; cl01070 318167010298 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 318167010299 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 318167010300 dimer interface [polypeptide binding]; other site 318167010301 active site 318167010302 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318167010303 catalytic residues [active] 318167010304 substrate binding site [chemical binding]; other site 318167010305 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318167010306 Helix-turn-helix domains; Region: HTH; cl00088 318167010307 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 318167010308 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 318167010309 substrate binding site [chemical binding]; other site 318167010310 dimer interface [polypeptide binding]; other site 318167010311 ATP binding site [chemical binding]; other site 318167010312 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 318167010313 active site 318167010314 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 318167010315 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 318167010316 Restriction endonuclease; Region: Mrr_cat; cl00516 318167010317 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13104 318167010318 SEC-C motif; Region: SEC-C; pfam02810 318167010319 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 318167010320 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 318167010321 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 318167010322 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 318167010323 Walker A motif; other site 318167010324 ATP binding site [chemical binding]; other site 318167010325 Walker B motif; other site 318167010326 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 318167010327 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 318167010328 ATP binding site [chemical binding]; other site 318167010329 putative Mg++ binding site [ion binding]; other site 318167010330 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 318167010331 non-specific DNA binding site [nucleotide binding]; other site 318167010332 salt bridge; other site 318167010333 sequence-specific DNA binding site [nucleotide binding]; other site 318167010334 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 318167010335 Predicted esterase [General function prediction only]; Region: COG0627 318167010336 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 318167010337 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 318167010338 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 318167010339 substrate binding site [chemical binding]; other site 318167010340 catalytic Zn binding site [ion binding]; other site 318167010341 NAD binding site [chemical binding]; other site 318167010342 structural Zn binding site [ion binding]; other site 318167010343 dimer interface [polypeptide binding]; other site 318167010344 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 318167010345 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 318167010346 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl15791 318167010347 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 318167010348 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167010349 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 318167010350 Walker A motif; other site 318167010351 ATP binding site [chemical binding]; other site 318167010352 Walker B motif; other site 318167010353 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 318167010354 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 318167010355 putative alcohol dehydrogenase; Provisional; Region: PRK09860 318167010356 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 318167010357 dimer interface [polypeptide binding]; other site 318167010358 active site 318167010359 metal binding site [ion binding]; metal-binding site 318167010360 LysR family transcriptional regulator; Provisional; Region: PRK14997 318167010361 Helix-turn-helix domains; Region: HTH; cl00088 318167010362 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 318167010363 putative effector binding pocket; other site 318167010364 putative dimerization interface [polypeptide binding]; other site 318167010365 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 318167010366 active site 318167010367 catalytic residues [active] 318167010368 DNA binding site [nucleotide binding] 318167010369 Int/Topo IB signature motif; other site 318167010370 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 318167010371 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 318167010372 active site 318167010373 DNA binding site [nucleotide binding] 318167010374 Int/Topo IB signature motif; other site 318167010375 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 318167010376 DNA binding site [nucleotide binding] 318167010377 Int/Topo IB signature motif; other site 318167010378 active site 318167010379 Divergent AAA domain; Region: AAA_4; pfam04326 318167010380 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 318167010381 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 318167010382 Helix-turn-helix domains; Region: HTH; cl00088 318167010383 putative transposase OrfB; Reviewed; Region: PHA02517 318167010384 HTH-like domain; Region: HTH_21; pfam13276 318167010385 Integrase core domain; Region: rve; cl01316 318167010386 Integrase core domain; Region: rve_3; cl15866 318167010387 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 318167010388 Catalytic site [active] 318167010389 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 318167010390 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 318167010391 active site 318167010392 DNA binding site [nucleotide binding] 318167010393 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 318167010394 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 318167010395 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 318167010396 lipoyl-biotinyl attachment site [posttranslational modification]; other site 318167010397 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 318167010398 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 318167010399 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 318167010400 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 318167010401 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 318167010402 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 318167010403 DNA binding residues [nucleotide binding] 318167010404 dimer interface [polypeptide binding]; other site 318167010405 putative metal binding site [ion binding]; other site 318167010406 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 318167010407 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 318167010408 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 318167010409 metal-binding site [ion binding] 318167010410 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 318167010411 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318167010412 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 318167010413 active site 318167010414 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 318167010415 lipoprotein signal peptidase; Provisional; Region: PRK14787 318167010416 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 318167010417 multiple promoter invertase; Provisional; Region: mpi; PRK13413 318167010418 catalytic residues [active] 318167010419 catalytic nucleophile [active] 318167010420 Presynaptic Site I dimer interface [polypeptide binding]; other site 318167010421 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 318167010422 Synaptic Flat tetramer interface [polypeptide binding]; other site 318167010423 Synaptic Site I dimer interface [polypeptide binding]; other site 318167010424 DNA binding site [nucleotide binding] 318167010425 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 318167010426 DNA-binding interface [nucleotide binding]; DNA binding site 318167010427 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 318167010428 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 318167010429 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 318167010430 Cation efflux family; Region: Cation_efflux; cl00316 318167010431 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 318167010432 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 318167010433 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 318167010434 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 318167010435 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 318167010436 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 318167010437 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 318167010438 Cation efflux family; Region: Cation_efflux; cl00316 318167010439 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 318167010440 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 318167010441 catalytic residues [active] 318167010442 catalytic nucleophile [active] 318167010443 Presynaptic Site I dimer interface [polypeptide binding]; other site 318167010444 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 318167010445 Synaptic Flat tetramer interface [polypeptide binding]; other site 318167010446 Synaptic Site I dimer interface [polypeptide binding]; other site 318167010447 DNA binding site [nucleotide binding] 318167010448 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 318167010449 DNA-binding interface [nucleotide binding]; DNA binding site 318167010450 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 318167010451 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 318167010452 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 318167010453 catalytic residues [active] 318167010454 catalytic nucleophile [active] 318167010455 Presynaptic Site I dimer interface [polypeptide binding]; other site 318167010456 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 318167010457 Synaptic Flat tetramer interface [polypeptide binding]; other site 318167010458 Synaptic Site I dimer interface [polypeptide binding]; other site 318167010459 DNA binding site [nucleotide binding] 318167010460 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 318167010461 DNA-binding interface [nucleotide binding]; DNA binding site 318167010462 putative metal dependent hydrolase; Provisional; Region: PRK11598 318167010463 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 318167010464 Sulfatase; Region: Sulfatase; cl10460 318167010465 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 318167010466 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 318167010467 active site 318167010468 catalytic residues [active] 318167010469 DNA binding site [nucleotide binding] 318167010470 Int/Topo IB signature motif; other site 318167010471 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 318167010472 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 318167010473 active site 318167010474 DNA binding site [nucleotide binding] 318167010475 Int/Topo IB signature motif; other site 318167010476 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 318167010477 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 318167010478 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 318167010479 putative active site [active] 318167010480 putative NTP binding site [chemical binding]; other site 318167010481 putative nucleic acid binding site [nucleotide binding]; other site 318167010482 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 318167010483 putative mercuric reductase; Provisional; Region: PRK13748 318167010484 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 318167010485 metal-binding site [ion binding] 318167010486 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167010487 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 318167010488 MerC mercury resistance protein; Region: MerC; cl03934 318167010489 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 318167010490 metal-binding site [ion binding] 318167010491 MerT mercuric transport protein; Region: MerT; cl03578 318167010492 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 318167010493 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 318167010494 DNA binding residues [nucleotide binding] 318167010495 dimer interface [polypeptide binding]; other site 318167010496 mercury binding site [ion binding]; other site 318167010497 Putative phage integrase; Region: Phage_Integr_2; pfam13009 318167010498 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 318167010499 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 318167010500 DNA binding site [nucleotide binding] 318167010501 active site 318167010502 Int/Topo IB signature motif; other site 318167010503 catalytic residues [active] 318167010504 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 318167010505 Protein kinase domain; Region: Pkinase; pfam00069 318167010506 Catalytic domain of Protein Kinases; Region: PKc; cd00180 318167010507 active site 318167010508 ATP binding site [chemical binding]; other site 318167010509 substrate binding site [chemical binding]; other site 318167010510 activation loop (A-loop); other site 318167010511 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 318167010512 active site 318167010513 Cache domain; Region: Cache_1; pfam02743 318167010514 PAS fold; Region: PAS_4; pfam08448 318167010515 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 318167010516 putative active site [active] 318167010517 heme pocket [chemical binding]; other site 318167010518 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 318167010519 PAS fold; Region: PAS_3; pfam08447 318167010520 putative active site [active] 318167010521 heme pocket [chemical binding]; other site 318167010522 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 318167010523 dimer interface [polypeptide binding]; other site 318167010524 phosphorylation site [posttranslational modification] 318167010525 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 318167010526 ATP binding site [chemical binding]; other site 318167010527 Mg2+ binding site [ion binding]; other site 318167010528 G-X-G motif; other site 318167010529 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167010530 Response regulator receiver domain; Region: Response_reg; pfam00072 318167010531 active site 318167010532 phosphorylation site [posttranslational modification] 318167010533 intermolecular recognition site; other site 318167010534 dimerization interface [polypeptide binding]; other site 318167010535 Response regulator receiver domain; Region: Response_reg; pfam00072 318167010536 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167010537 active site 318167010538 phosphorylation site [posttranslational modification] 318167010539 intermolecular recognition site; other site 318167010540 dimerization interface [polypeptide binding]; other site 318167010541 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318167010542 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 318167010543 Transcriptional regulators [Transcription]; Region: PurR; COG1609 318167010544 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 318167010545 DNA binding site [nucleotide binding] 318167010546 domain linker motif; other site 318167010547 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 318167010548 putative dimerization interface [polypeptide binding]; other site 318167010549 putative ligand binding site [chemical binding]; other site 318167010550 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 318167010551 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 318167010552 putative substrate translocation pore; other site 318167010553 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 318167010554 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 318167010555 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 318167010556 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 318167010557 putative active site [active] 318167010558 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167010559 ATP-dependent helicase HepA; Validated; Region: PRK04914 318167010560 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 318167010561 ATP binding site [chemical binding]; other site 318167010562 putative Mg++ binding site [ion binding]; other site 318167010563 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 318167010564 nucleotide binding region [chemical binding]; other site 318167010565 ATP-binding site [chemical binding]; other site 318167010566 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 318167010567 enoyl-CoA hydratase; Provisional; Region: PRK07509 318167010568 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 318167010569 substrate binding site [chemical binding]; other site 318167010570 oxyanion hole (OAH) forming residues; other site 318167010571 trimer interface [polypeptide binding]; other site 318167010572 Response regulator receiver domain; Region: Response_reg; pfam00072 318167010573 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167010574 active site 318167010575 phosphorylation site [posttranslational modification] 318167010576 intermolecular recognition site; other site 318167010577 dimerization interface [polypeptide binding]; other site 318167010578 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 318167010579 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 318167010580 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167010581 metal binding site [ion binding]; metal-binding site 318167010582 active site 318167010583 I-site; other site 318167010584 RNase E inhibitor protein; Provisional; Region: PRK11191 318167010585 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 318167010586 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 318167010587 putative acyl-acceptor binding pocket; other site 318167010588 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 318167010589 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 318167010590 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 318167010591 putative ligand binding site [chemical binding]; other site 318167010592 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 318167010593 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318167010594 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 318167010595 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 318167010596 active site 2 [active] 318167010597 active site 1 [active] 318167010598 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 318167010599 S-adenosylmethionine binding site [chemical binding]; other site 318167010600 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 318167010601 TraB family; Region: TraB; cl12050 318167010602 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 318167010603 FOG: CBS domain [General function prediction only]; Region: COG0517 318167010604 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 318167010605 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167010606 metal binding site [ion binding]; metal-binding site 318167010607 active site 318167010608 I-site; other site 318167010609 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 318167010610 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 318167010611 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 318167010612 active site 318167010613 phosphorylation site [posttranslational modification] 318167010614 intermolecular recognition site; other site 318167010615 dimerization interface [polypeptide binding]; other site 318167010616 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 318167010617 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167010618 active site 318167010619 phosphorylation site [posttranslational modification] 318167010620 intermolecular recognition site; other site 318167010621 dimerization interface [polypeptide binding]; other site 318167010622 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 318167010623 IHF dimer interface [polypeptide binding]; other site 318167010624 IHF - DNA interface [nucleotide binding]; other site 318167010625 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 318167010626 conserved hypothetical protein; Region: QEGLA; TIGR02421 318167010627 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 318167010628 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167010629 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 318167010630 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167010631 Walker A/P-loop; other site 318167010632 ATP binding site [chemical binding]; other site 318167010633 Q-loop/lid; other site 318167010634 ABC transporter signature motif; other site 318167010635 Walker B; other site 318167010636 D-loop; other site 318167010637 H-loop/switch region; other site 318167010638 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 318167010639 ABC-2 type transporter; Region: ABC2_membrane; cl11417 318167010640 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 318167010641 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 318167010642 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 318167010643 putative hydrophobic ligand binding site [chemical binding]; other site 318167010644 Cupin domain; Region: Cupin_2; cl09118 318167010645 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 318167010646 Cytochrome c [Energy production and conversion]; Region: COG3258 318167010647 Cytochrome c; Region: Cytochrom_C; cl11414 318167010648 Cytochrome c; Region: Cytochrom_C; cl11414 318167010649 Cytochrome c; Region: Cytochrom_C; cl11414 318167010650 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 318167010651 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 318167010652 FAD binding site [chemical binding]; other site 318167010653 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 318167010654 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 318167010655 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 318167010656 putative catalytic residues [active] 318167010657 putative nucleotide binding site [chemical binding]; other site 318167010658 putative aspartate binding site [chemical binding]; other site 318167010659 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 318167010660 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 318167010661 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 318167010662 homodimer interface [polypeptide binding]; other site 318167010663 substrate-cofactor binding pocket; other site 318167010664 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167010665 catalytic residue [active] 318167010666 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 318167010667 dimerization interface [polypeptide binding]; other site 318167010668 DNA binding site [nucleotide binding] 318167010669 corepressor binding sites; other site 318167010670 Cytochrome c; Region: Cytochrom_C; cl11414 318167010671 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 318167010672 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 318167010673 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 318167010674 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 318167010675 PSRA_1: Pseudouridine synthase, a subgroup of the RluA family. This group is comprised of bacterial proteins assigned to the RluA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PSRA_1; cd02558 318167010676 probable active site [active] 318167010677 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 318167010678 Domain of unknown function (DUF386); Region: DUF386; cl01047 318167010679 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 318167010680 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 318167010681 DHHA2 domain; Region: DHHA2; pfam02833 318167010682 Integrase core domain; Region: rve; cl01316 318167010683 Integrase core domain; Region: rve_3; cl15866 318167010684 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 318167010685 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 318167010686 DctM-like transporters; Region: DctM; pfam06808 318167010687 NMT1-like family; Region: NMT1_2; cl15260 318167010688 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 318167010689 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 318167010690 putative active site [active] 318167010691 catalytic site [active] 318167010692 putative metal binding site [ion binding]; other site 318167010693 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 318167010694 catalytic residues [active] 318167010695 Transglycosylase; Region: Transgly; cl07896 318167010696 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 318167010697 B12 binding site [chemical binding]; other site 318167010698 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 318167010699 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 318167010700 catalytic motif [active] 318167010701 Zn binding site [ion binding]; other site 318167010702 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 318167010703 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 318167010704 methionine synthase; Provisional; Region: PRK01207 318167010705 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 318167010706 substrate binding site [chemical binding]; other site 318167010707 THF binding site; other site 318167010708 zinc-binding site [ion binding]; other site 318167010709 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 318167010710 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 318167010711 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 318167010712 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 318167010713 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 318167010714 Gram-negative bacterial tonB protein; Region: TonB; cl10048 318167010715 Helix-turn-helix domains; Region: HTH; cl00088 318167010716 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 318167010717 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 318167010718 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 318167010719 Protein of unknown function (DUF3012); Region: DUF3012; pfam11216 318167010720 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 318167010721 RF-1 domain; Region: RF-1; cl02875 318167010722 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 318167010723 active site 318167010724 trimer interface [polypeptide binding]; other site 318167010725 dimer interface [polypeptide binding]; other site 318167010726 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 318167010727 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 318167010728 PhoD-like phosphatase; Region: PhoD; pfam09423 318167010729 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 318167010730 putative active site [active] 318167010731 putative metal binding site [ion binding]; other site 318167010732 PhoD-like phosphatase; Region: PhoD; pfam09423 318167010733 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 318167010734 OsmC-like protein; Region: OsmC; cl00767 318167010735 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 318167010736 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 318167010737 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318167010738 classical (c) SDRs; Region: SDR_c; cd05233 318167010739 NAD(P) binding site [chemical binding]; other site 318167010740 active site 318167010741 Helix-turn-helix domains; Region: HTH; cl00088 318167010742 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 318167010743 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318167010744 Beta-Casp domain; Region: Beta-Casp; cl12567 318167010745 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 318167010746 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 318167010747 trimer interface [polypeptide binding]; other site 318167010748 eyelet of channel; other site 318167010749 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 318167010750 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 318167010751 substrate binding site [chemical binding]; other site 318167010752 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 318167010753 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 318167010754 metal binding site [ion binding]; metal-binding site 318167010755 putative dimer interface [polypeptide binding]; other site 318167010756 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 318167010757 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318167010758 GAF domain; Region: GAF; cl15785 318167010759 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167010760 metal binding site [ion binding]; metal-binding site 318167010761 active site 318167010762 I-site; other site 318167010763 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 318167010764 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 318167010765 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 318167010766 FAD binding pocket [chemical binding]; other site 318167010767 FAD binding motif [chemical binding]; other site 318167010768 phosphate binding motif [ion binding]; other site 318167010769 beta-alpha-beta structure motif; other site 318167010770 NAD binding pocket [chemical binding]; other site 318167010771 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 318167010772 catalytic loop [active] 318167010773 iron binding site [ion binding]; other site 318167010774 hybrid cluster protein; Provisional; Region: PRK05290 318167010775 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 318167010776 ACS interaction site; other site 318167010777 CODH interaction site; other site 318167010778 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 318167010779 hybrid metal cluster; other site 318167010780 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 318167010781 Protein of unknown function (DUF3157); Region: DUF3157; pfam11355 318167010782 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 318167010783 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 318167010784 active site 318167010785 Zn binding site [ion binding]; other site 318167010786 putative transposase OrfB; Reviewed; Region: PHA02517 318167010787 HTH-like domain; Region: HTH_21; pfam13276 318167010788 Integrase core domain; Region: rve; cl01316 318167010789 Integrase core domain; Region: rve_3; cl15866 318167010790 Helix-turn-helix domains; Region: HTH; cl00088 318167010791 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 318167010792 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 318167010793 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 318167010794 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 318167010795 putative catalytic residue [active] 318167010796 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 318167010797 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 318167010798 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 318167010799 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167010800 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 318167010801 Flavin Reductases; Region: FlaRed; cl00801 318167010802 Phosphotransferase enzyme family; Region: APH; pfam01636 318167010803 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167010804 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167010805 metal binding site [ion binding]; metal-binding site 318167010806 active site 318167010807 I-site; other site 318167010808 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 318167010809 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 318167010810 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 318167010811 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 318167010812 Helix-turn-helix domains; Region: HTH; cl00088 318167010813 DNA binding site [nucleotide binding] 318167010814 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 318167010815 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 318167010816 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 318167010817 PPIC-type PPIASE domain; Region: Rotamase; cl08278 318167010818 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 318167010819 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 318167010820 active site 318167010821 catalytic residues [active] 318167010822 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 318167010823 PA/protease or protease-like domain interface [polypeptide binding]; other site 318167010824 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 318167010825 catalytic residues [active] 318167010826 Protein of unknown function (DUF2999); Region: DUF2999; pfam11212 318167010827 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 318167010828 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 318167010829 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 318167010830 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 318167010831 Helix-turn-helix domains; Region: HTH; cl00088 318167010832 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 318167010833 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 318167010834 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 318167010835 DNA-binding site [nucleotide binding]; DNA binding site 318167010836 RNA-binding motif; other site 318167010837 Excalibur calcium-binding domain; Region: Excalibur; cl05460 318167010838 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 318167010839 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318167010840 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 318167010841 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167010842 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 318167010843 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167010844 NAD(P) binding site [chemical binding]; other site 318167010845 active site 318167010846 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 318167010847 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 318167010848 substrate binding pocket [chemical binding]; other site 318167010849 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 318167010850 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 318167010851 S-adenosylmethionine binding site [chemical binding]; other site 318167010852 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 318167010853 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 318167010854 non-specific DNA binding site [nucleotide binding]; other site 318167010855 salt bridge; other site 318167010856 sequence-specific DNA binding site [nucleotide binding]; other site 318167010857 Restriction endonuclease; Region: Mrr_cat; cl00516 318167010858 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 318167010859 putative metal binding site [ion binding]; other site 318167010860 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 318167010861 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 318167010862 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 318167010863 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 318167010864 ring oligomerisation interface [polypeptide binding]; other site 318167010865 ATP/Mg binding site [chemical binding]; other site 318167010866 stacking interactions; other site 318167010867 hinge regions; other site 318167010868 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 318167010869 oligomerisation interface [polypeptide binding]; other site 318167010870 mobile loop; other site 318167010871 roof hairpin; other site 318167010872 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 318167010873 MatE; Region: MatE; cl10513 318167010874 MatE; Region: MatE; cl10513 318167010875 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 318167010876 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 318167010877 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 318167010878 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 318167010879 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 318167010880 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 318167010881 DsbD alpha interface [polypeptide binding]; other site 318167010882 catalytic residues [active] 318167010883 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 318167010884 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 318167010885 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167010886 galactokinase; Provisional; Region: PRK05101 318167010887 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 318167010888 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 318167010889 active site 318167010890 catalytic residues [active] 318167010891 Putative integral membrane protein (DUF2391); Region: DUF2391; cl01935 318167010892 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 318167010893 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 318167010894 NAD(P) binding site [chemical binding]; other site 318167010895 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318167010896 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 318167010897 substrate binding pocket [chemical binding]; other site 318167010898 membrane-bound complex binding site; other site 318167010899 hinge residues; other site 318167010900 putative transporter; Provisional; Region: PRK11660 318167010901 Sulfate transporter family; Region: Sulfate_transp; cl15842 318167010902 Sulfate transporter family; Region: Sulfate_transp; cl15842 318167010903 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 318167010904 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 318167010905 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 318167010906 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 318167010907 dimer interface [polypeptide binding]; other site 318167010908 phosphorylation site [posttranslational modification] 318167010909 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318167010910 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167010911 active site 318167010912 phosphorylation site [posttranslational modification] 318167010913 intermolecular recognition site; other site 318167010914 dimerization interface [polypeptide binding]; other site 318167010915 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 318167010916 DNA binding site [nucleotide binding] 318167010917 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318167010918 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 318167010919 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 318167010920 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 318167010921 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 318167010922 haloalkane dehalogenase; Provisional; Region: PRK00870 318167010923 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 318167010924 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 318167010925 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 318167010926 4Fe-4S binding domain; Region: Fer4; cl02805 318167010927 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 318167010928 This CD (MopB_DmsA-EC) 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_DmsA-EC; cd02770 318167010929 putative [Fe4-S4] binding site [ion binding]; other site 318167010930 putative molybdopterin cofactor binding site [chemical binding]; other site 318167010931 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 318167010932 putative molybdopterin cofactor binding site; other site 318167010933 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 318167010934 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 318167010935 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 318167010936 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 318167010937 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 318167010938 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318167010939 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167010940 active site 318167010941 phosphorylation site [posttranslational modification] 318167010942 intermolecular recognition site; other site 318167010943 dimerization interface [polypeptide binding]; other site 318167010944 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 318167010945 Walker A motif; other site 318167010946 ATP binding site [chemical binding]; other site 318167010947 Walker B motif; other site 318167010948 arginine finger; other site 318167010949 Helix-turn-helix domains; Region: HTH; cl00088 318167010950 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318167010951 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 318167010952 substrate binding pocket [chemical binding]; other site 318167010953 membrane-bound complex binding site; other site 318167010954 hinge residues; other site 318167010955 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 318167010956 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 318167010957 dimer interface [polypeptide binding]; other site 318167010958 phosphorylation site [posttranslational modification] 318167010959 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 318167010960 ATP binding site [chemical binding]; other site 318167010961 Mg2+ binding site [ion binding]; other site 318167010962 G-X-G motif; other site 318167010963 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 318167010964 heme-binding residues [chemical binding]; other site 318167010965 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167010966 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 318167010967 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167010968 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 318167010969 outer membrane porin, OprD family; Region: OprD; pfam03573 318167010970 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 318167010971 heme-binding residues [chemical binding]; other site 318167010972 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 318167010973 Transcriptional regulators [Transcription]; Region: FadR; COG2186 318167010974 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318167010975 DNA-binding site [nucleotide binding]; DNA binding site 318167010976 FCD domain; Region: FCD; cl11656 318167010977 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 318167010978 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 318167010979 GAF domain; Region: GAF; cl15785 318167010980 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 318167010981 Walker A motif; other site 318167010982 ATP binding site [chemical binding]; other site 318167010983 Walker B motif; other site 318167010984 arginine finger; other site 318167010985 Helix-turn-helix domains; Region: HTH; cl00088 318167010986 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 318167010987 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 318167010988 heme-binding site [chemical binding]; other site 318167010989 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 318167010990 FAD binding pocket [chemical binding]; other site 318167010991 FAD binding motif [chemical binding]; other site 318167010992 phosphate binding motif [ion binding]; other site 318167010993 beta-alpha-beta structure motif; other site 318167010994 NAD binding pocket [chemical binding]; other site 318167010995 Heme binding pocket [chemical binding]; other site 318167010996 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 318167010997 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 318167010998 mce related protein; Region: MCE; pfam02470 318167010999 Permease; Region: Permease; cl00510 318167011000 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 318167011001 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 318167011002 Walker A/P-loop; other site 318167011003 ATP binding site [chemical binding]; other site 318167011004 Q-loop/lid; other site 318167011005 ABC transporter signature motif; other site 318167011006 Walker B; other site 318167011007 D-loop; other site 318167011008 H-loop/switch region; other site 318167011009 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 318167011010 anti sigma factor interaction site; other site 318167011011 regulatory phosphorylation site [posttranslational modification]; other site 318167011012 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 318167011013 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 318167011014 VacJ like lipoprotein; Region: VacJ; cl01073 318167011015 putative hydrolase; Validated; Region: PRK09248 318167011016 RNase P subunit p30; Region: RNase_P_p30; cl03389 318167011017 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 318167011018 dimer interface [polypeptide binding]; other site 318167011019 ssDNA binding site [nucleotide binding]; other site 318167011020 tetramer (dimer of dimers) interface [polypeptide binding]; other site 318167011021 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 318167011022 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318167011023 putative substrate translocation pore; other site 318167011024 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 318167011025 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 318167011026 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 318167011027 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 318167011028 M28 Zn-Peptidases; Region: M28_like_2; cd05662 318167011029 metal binding site [ion binding]; metal-binding site 318167011030 DEAD-like helicases superfamily; Region: DEXDc; smart00487 318167011031 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 318167011032 ATP binding site [chemical binding]; other site 318167011033 Mg++ binding site [ion binding]; other site 318167011034 motif III; other site 318167011035 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 318167011036 nucleotide binding region [chemical binding]; other site 318167011037 ATP-binding site [chemical binding]; other site 318167011038 DbpA RNA binding domain; Region: DbpA; pfam03880 318167011039 Predicted permeases [General function prediction only]; Region: RarD; COG2962 318167011040 EamA-like transporter family; Region: EamA; cl01037 318167011041 EamA-like transporter family; Region: EamA; cl01037 318167011042 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 318167011043 ATP binding site [chemical binding]; other site 318167011044 active site 318167011045 substrate binding site [chemical binding]; other site 318167011046 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 318167011047 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 318167011048 N-terminal plug; other site 318167011049 ligand-binding site [chemical binding]; other site 318167011050 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 318167011051 Lamin Tail Domain; Region: LTD; pfam00932 318167011052 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 318167011053 generic binding surface II; other site 318167011054 generic binding surface I; other site 318167011055 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 318167011056 putative catalytic site [active] 318167011057 putative metal binding site [ion binding]; other site 318167011058 putative phosphate binding site [ion binding]; other site 318167011059 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 318167011060 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167011061 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167011062 dimer interface [polypeptide binding]; other site 318167011063 putative CheW interface [polypeptide binding]; other site 318167011064 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 318167011065 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 318167011066 Protein of unknown function (DUF615); Region: DUF615; cl01147 318167011067 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167011068 Helix-turn-helix domains; Region: HTH; cl00088 318167011069 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 318167011070 dimerization interface [polypeptide binding]; other site 318167011071 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 318167011072 ABC-2 type transporter; Region: ABC2_membrane; cl11417 318167011073 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 318167011074 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 318167011075 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 318167011076 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 318167011077 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 318167011078 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 318167011079 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 318167011080 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 318167011081 Predicted amidohydrolase [General function prediction only]; Region: COG0388 318167011082 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 318167011083 putative active site [active] 318167011084 catalytic triad [active] 318167011085 dimer interface [polypeptide binding]; other site 318167011086 TIGR02099 family protein; Region: TIGR02099 318167011087 AsmA-like C-terminal region; Region: AsmA_2; cl15864 318167011088 ribonuclease G; Provisional; Region: PRK11712 318167011089 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 318167011090 homodimer interface [polypeptide binding]; other site 318167011091 oligonucleotide binding site [chemical binding]; other site 318167011092 Maf-like protein; Region: Maf; pfam02545 318167011093 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 318167011094 active site 318167011095 dimer interface [polypeptide binding]; other site 318167011096 rod shape-determining protein MreD; Region: MreD; cl01087 318167011097 rod shape-determining protein MreC; Provisional; Region: PRK13922 318167011098 rod shape-determining protein MreC; Region: MreC; pfam04085 318167011099 rod shape-determining protein MreB; Provisional; Region: PRK13927 318167011100 hypothetical protein; Provisional; Region: PRK10039 318167011101 VcfQ bacterial pilus biogenesis protein, lectin domain; Region: lectin_VcfQ; cd06900 318167011102 putative metal binding site [ion binding]; other site 318167011103 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 318167011104 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 318167011105 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 318167011106 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 318167011107 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 318167011108 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 318167011109 Walker A motif; other site 318167011110 ATP binding site [chemical binding]; other site 318167011111 Walker B motif; other site 318167011112 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 318167011113 binding surface 318167011114 Tetratricopeptide repeat; Region: TPR_16; pfam13432 318167011115 TPR motif; other site 318167011116 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 318167011117 binding surface 318167011118 TPR motif; other site 318167011119 TPR repeat; Region: TPR_11; pfam13414 318167011120 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 318167011121 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 318167011122 Walker A motif; other site 318167011123 ATP binding site [chemical binding]; other site 318167011124 Walker B motif; other site 318167011125 arginine finger; other site 318167011126 putative outer membrane porin HofQ; Provisional; Region: hofQ; PRK13568 318167011127 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 318167011128 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 318167011129 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 318167011130 regulatory protein CsrD; Provisional; Region: PRK11059 318167011131 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 318167011132 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 318167011133 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 318167011134 Malic enzyme, N-terminal domain; Region: malic; pfam00390 318167011135 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 318167011136 putative NAD(P) binding site [chemical binding]; other site 318167011137 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 318167011138 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 318167011139 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 318167011140 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 318167011141 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 318167011142 primosome assembly protein PriA; Validated; Region: PRK05580 318167011143 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 318167011144 ATP binding site [chemical binding]; other site 318167011145 putative Mg++ binding site [ion binding]; other site 318167011146 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167011147 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 318167011148 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 318167011149 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 318167011150 active site 318167011151 HIGH motif; other site 318167011152 KMSK motif region; other site 318167011153 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 318167011154 tRNA binding surface [nucleotide binding]; other site 318167011155 anticodon binding site; other site 318167011156 Sporulation related domain; Region: SPOR; cl10051 318167011157 Sporulation related domain; Region: SPOR; cl10051 318167011158 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 318167011159 active site 318167011160 HslU subunit interaction site [polypeptide binding]; other site 318167011161 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 318167011162 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 318167011163 Walker A motif; other site 318167011164 ATP binding site [chemical binding]; other site 318167011165 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 318167011166 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 318167011167 Protein of unknown function (DUF971); Region: DUF971; cl01414 318167011168 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318167011169 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318167011170 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318167011171 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 318167011172 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 318167011173 substrate binding site [chemical binding]; other site 318167011174 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 318167011175 substrate binding site [chemical binding]; other site 318167011176 ligand binding site [chemical binding]; other site 318167011177 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 318167011178 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 318167011179 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 318167011180 motif II; other site 318167011181 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 318167011182 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 318167011183 active site 318167011184 nucleophile elbow; other site 318167011185 Surface antigen; Region: Bac_surface_Ag; cl03097 318167011186 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 318167011187 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 318167011188 PAS fold; Region: PAS_3; pfam08447 318167011189 PAS domain S-box; Region: sensory_box; TIGR00229 318167011190 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 318167011191 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167011192 metal binding site [ion binding]; metal-binding site 318167011193 active site 318167011194 I-site; other site 318167011195 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 318167011196 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 318167011197 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167011198 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167011199 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 318167011200 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 318167011201 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 318167011202 E3 interaction surface; other site 318167011203 lipoyl attachment site [posttranslational modification]; other site 318167011204 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 318167011205 E3 interaction surface; other site 318167011206 lipoyl attachment site [posttranslational modification]; other site 318167011207 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 318167011208 E3 interaction surface; other site 318167011209 lipoyl attachment site [posttranslational modification]; other site 318167011210 e3 binding domain; Region: E3_binding; pfam02817 318167011211 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 318167011212 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 318167011213 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 318167011214 dimer interface [polypeptide binding]; other site 318167011215 TPP-binding site [chemical binding]; other site 318167011216 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 318167011217 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318167011218 DNA-binding site [nucleotide binding]; DNA binding site 318167011219 FCD domain; Region: FCD; cl11656 318167011220 CobD/Cbib protein; Region: CobD_Cbib; cl00561 318167011221 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 318167011222 amidase catalytic site [active] 318167011223 Zn binding residues [ion binding]; other site 318167011224 substrate binding site [chemical binding]; other site 318167011225 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 318167011226 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 318167011227 dimerization interface [polypeptide binding]; other site 318167011228 active site 318167011229 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 318167011230 Pilin (bacterial filament); Region: Pilin; pfam00114 318167011231 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 318167011232 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 318167011233 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 318167011234 Walker A motif; other site 318167011235 ATP binding site [chemical binding]; other site 318167011236 Walker B motif; other site 318167011237 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 318167011238 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 318167011239 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 318167011240 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 318167011241 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 318167011242 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 318167011243 CoA-binding site [chemical binding]; other site 318167011244 ATP-binding [chemical binding]; other site 318167011245 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 318167011246 Domain of unknown function (DUF329); Region: DUF329; cl01144 318167011247 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 318167011248 active site 318167011249 8-oxo-dGMP binding site [chemical binding]; other site 318167011250 nudix motif; other site 318167011251 metal binding site [ion binding]; metal-binding site 318167011252 Integrase core domain; Region: rve; cl01316 318167011253 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 318167011254 Helix-turn-helix domains; Region: HTH; cl00088 318167011255 Winged helix-turn helix; Region: HTH_33; pfam13592 318167011256 Integrase core domain; Region: rve; cl01316 318167011257 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 318167011258 Helix-turn-helix domains; Region: HTH; cl00088 318167011259 Winged helix-turn helix; Region: HTH_33; pfam13592 318167011260 preprotein translocase subunit SecA; Reviewed; Region: PRK13107 318167011261 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 318167011262 SEC-C motif; Region: SEC-C; pfam02810 318167011263 Peptidase family M23; Region: Peptidase_M23; pfam01551 318167011264 Protein of unknown function (DUF721); Region: DUF721; cl02324 318167011265 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 318167011266 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 318167011267 cell division protein FtsZ; Validated; Region: PRK09330 318167011268 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 318167011269 nucleotide binding site [chemical binding]; other site 318167011270 SulA interaction site; other site 318167011271 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 318167011272 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 318167011273 Cell division protein FtsA; Region: FtsA; cl11496 318167011274 Cell division protein FtsA; Region: FtsA; cl11496 318167011275 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 318167011276 Cell division protein FtsQ; Region: FtsQ; pfam03799 318167011277 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 318167011278 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 318167011279 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318167011280 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318167011281 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 318167011282 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 318167011283 active site 318167011284 homodimer interface [polypeptide binding]; other site 318167011285 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 318167011286 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 318167011287 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167011288 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318167011289 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318167011290 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 318167011291 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 318167011292 Mg++ binding site [ion binding]; other site 318167011293 putative catalytic motif [active] 318167011294 putative substrate binding site [chemical binding]; other site 318167011295 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 318167011296 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 318167011297 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318167011298 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318167011299 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 318167011300 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 318167011301 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318167011302 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318167011303 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 318167011304 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 318167011305 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 318167011306 Septum formation initiator; Region: DivIC; cl11433 318167011307 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 318167011308 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167011309 cell division protein MraZ; Reviewed; Region: PRK00326 318167011310 MraZ protein; Region: MraZ; pfam02381 318167011311 MraZ protein; Region: MraZ; pfam02381 318167011312 glycerol kinase; Provisional; Region: glpK; PRK00047 318167011313 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 318167011314 N- and C-terminal domain interface [polypeptide binding]; other site 318167011315 active site 318167011316 MgATP binding site [chemical binding]; other site 318167011317 catalytic site [active] 318167011318 metal binding site [ion binding]; metal-binding site 318167011319 glycerol binding site [chemical binding]; other site 318167011320 homotetramer interface [polypeptide binding]; other site 318167011321 homodimer interface [polypeptide binding]; other site 318167011322 FBP binding site [chemical binding]; other site 318167011323 protein IIAGlc interface [polypeptide binding]; other site 318167011324 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 318167011325 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 318167011326 substrate binding site [chemical binding]; other site 318167011327 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 318167011328 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 318167011329 substrate binding site [chemical binding]; other site 318167011330 ligand binding site [chemical binding]; other site 318167011331 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 318167011332 tartrate dehydrogenase; Provisional; Region: PRK08194 318167011333 2-isopropylmalate synthase; Validated; Region: PRK00915 318167011334 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 318167011335 active site 318167011336 catalytic residues [active] 318167011337 metal binding site [ion binding]; metal-binding site 318167011338 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 318167011339 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167011340 metal binding site [ion binding]; metal-binding site 318167011341 active site 318167011342 I-site; other site 318167011343 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 318167011344 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 318167011345 ATP binding site [chemical binding]; other site 318167011346 putative Mg++ binding site [ion binding]; other site 318167011347 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 318167011348 nucleotide binding region [chemical binding]; other site 318167011349 ATP-binding site [chemical binding]; other site 318167011350 RQC domain; Region: RQC; cl09632 318167011351 HRDC domain; Region: HRDC; cl02578 318167011352 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 318167011353 CoenzymeA binding site [chemical binding]; other site 318167011354 subunit interaction site [polypeptide binding]; other site 318167011355 PHB binding site; other site 318167011356 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 318167011357 N-acetylglutamate synthase; Validated; Region: PRK05279 318167011358 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 318167011359 putative feedback inhibition sensing region; other site 318167011360 putative nucleotide binding site [chemical binding]; other site 318167011361 putative substrate binding site [chemical binding]; other site 318167011362 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167011363 Coenzyme A binding pocket [chemical binding]; other site 318167011364 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 318167011365 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 318167011366 hypothetical protein; Reviewed; Region: PRK00024 318167011367 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 318167011368 MPN+ (JAMM) motif; other site 318167011369 Zinc-binding site [ion binding]; other site 318167011370 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 318167011371 Flavoprotein; Region: Flavoprotein; cl08021 318167011372 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 318167011373 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 318167011374 trimer interface [polypeptide binding]; other site 318167011375 active site 318167011376 division inhibitor protein; Provisional; Region: slmA; PRK09480 318167011377 Helix-turn-helix domains; Region: HTH; cl00088 318167011378 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 318167011379 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 318167011380 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 318167011381 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 318167011382 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 318167011383 active site 318167011384 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 318167011385 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318167011386 active site 318167011387 ribonuclease PH; Reviewed; Region: rph; PRK00173 318167011388 Ribonuclease PH; Region: RNase_PH_bact; cd11362 318167011389 hexamer interface [polypeptide binding]; other site 318167011390 active site 318167011391 hypothetical protein; Provisional; Region: PRK11820 318167011392 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 318167011393 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 318167011394 ATP-grasp domain; Region: ATP-grasp_4; cl03087 318167011395 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 318167011396 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 318167011397 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 318167011398 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 318167011399 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 318167011400 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 318167011401 PLD-like domain; Region: PLDc_2; pfam13091 318167011402 putative homodimer interface [polypeptide binding]; other site 318167011403 putative active site [active] 318167011404 catalytic site [active] 318167011405 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 318167011406 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 318167011407 ATP binding site [chemical binding]; other site 318167011408 putative Mg++ binding site [ion binding]; other site 318167011409 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 318167011410 nucleotide binding region [chemical binding]; other site 318167011411 ATP-binding site [chemical binding]; other site 318167011412 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 318167011413 Fic family protein [Function unknown]; Region: COG3177 318167011414 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 318167011415 Fic/DOC family; Region: Fic; cl00960 318167011416 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 318167011417 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318167011418 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 318167011419 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 318167011420 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 318167011421 Ligand binding site; other site 318167011422 DXD motif; other site 318167011423 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 318167011424 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 318167011425 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 318167011426 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 318167011427 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 318167011428 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 318167011429 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 318167011430 N-terminal plug; other site 318167011431 ligand-binding site [chemical binding]; other site 318167011432 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167011433 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167011434 dimer interface [polypeptide binding]; other site 318167011435 putative CheW interface [polypeptide binding]; other site 318167011436 Cupin domain; Region: Cupin_2; cl09118 318167011437 Helix-turn-helix domain; Region: HTH_18; pfam12833 318167011438 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318167011439 cyanate transporter; Region: CynX; TIGR00896 318167011440 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 318167011441 putative substrate translocation pore; other site 318167011442 HPP family; Region: HPP; pfam04982 318167011443 aromatic amino acid exporter; Provisional; Region: PRK11689 318167011444 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167011445 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 318167011446 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 318167011447 putative metal binding site [ion binding]; other site 318167011448 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 318167011449 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 318167011450 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318167011451 catalytic residue [active] 318167011452 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 318167011453 Protein export membrane protein; Region: SecD_SecF; cl14618 318167011454 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 318167011455 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 318167011456 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 318167011457 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 318167011458 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 318167011459 Helix-turn-helix domains; Region: HTH; cl00088 318167011460 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 318167011461 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 318167011462 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 318167011463 active site 318167011464 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 318167011465 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 318167011466 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167011467 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 318167011468 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 318167011469 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 318167011470 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 318167011471 DNA binding residues [nucleotide binding] 318167011472 putative dimer interface [polypeptide binding]; other site 318167011473 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 318167011474 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 318167011475 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 318167011476 active site 318167011477 Zn binding site [ion binding]; other site 318167011478 glutathione reductase; Validated; Region: PRK06116 318167011479 Winged helix-turn helix; Region: HTH_29; pfam13551 318167011480 Helix-turn-helix domains; Region: HTH; cl00088 318167011481 Helix-turn-helix domains; Region: HTH; cl00088 318167011482 Integrase core domain; Region: rve; cl01316 318167011483 Integrase core domain; Region: rve_3; cl15866 318167011484 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 318167011485 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 318167011486 transmembrane helices; other site 318167011487 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 318167011488 putative active site [active] 318167011489 putative metal binding residues [ion binding]; other site 318167011490 signature motif; other site 318167011491 putative dimer interface [polypeptide binding]; other site 318167011492 putative phosphate binding site [ion binding]; other site 318167011493 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 318167011494 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 318167011495 Phosphate transporter family; Region: PHO4; cl00396 318167011496 Nitrogen regulatory protein P-II; Region: P-II; cl00412 318167011497 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 318167011498 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167011499 Helix-turn-helix domains; Region: HTH; cl00088 318167011500 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167011501 Helix-turn-helix domains; Region: HTH; cl00088 318167011502 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167011503 Helix-turn-helix domains; Region: HTH; cl00088 318167011504 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 318167011505 dimerization interface [polypeptide binding]; other site 318167011506 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 318167011507 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 318167011508 heme-binding residues [chemical binding]; other site 318167011509 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 318167011510 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167011511 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 318167011512 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 318167011513 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 318167011514 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 318167011515 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 318167011516 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 318167011517 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 318167011518 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 318167011519 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 318167011520 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167011521 active site 318167011522 phosphorylation site [posttranslational modification] 318167011523 intermolecular recognition site; other site 318167011524 dimerization interface [polypeptide binding]; other site 318167011525 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 318167011526 DNA binding site [nucleotide binding] 318167011527 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 318167011528 dimer interface [polypeptide binding]; other site 318167011529 phosphorylation site [posttranslational modification] 318167011530 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 318167011531 ATP binding site [chemical binding]; other site 318167011532 Mg2+ binding site [ion binding]; other site 318167011533 G-X-G motif; other site 318167011534 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 318167011535 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 318167011536 non-specific DNA binding site [nucleotide binding]; other site 318167011537 salt bridge; other site 318167011538 sequence-specific DNA binding site [nucleotide binding]; other site 318167011539 Protein of unknown function (DUF3612); Region: DUF3612; pfam12268 318167011540 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 318167011541 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 318167011542 4Fe-4S binding domain; Region: Fer4_5; pfam12801 318167011543 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 318167011544 PAS domain S-box; Region: sensory_box; TIGR00229 318167011545 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 318167011546 putative active site [active] 318167011547 heme pocket [chemical binding]; other site 318167011548 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 318167011549 Walker A motif; other site 318167011550 ATP binding site [chemical binding]; other site 318167011551 Walker B motif; other site 318167011552 arginine finger; other site 318167011553 Helix-turn-helix domains; Region: HTH; cl00088 318167011554 Paraquat-inducible protein A; Region: PqiA; pfam04403 318167011555 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 318167011556 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167011557 metal binding site [ion binding]; metal-binding site 318167011558 active site 318167011559 I-site; other site 318167011560 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 318167011561 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 318167011562 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 318167011563 apolar tunnel; other site 318167011564 heme binding site [chemical binding]; other site 318167011565 dimerization interface [polypeptide binding]; other site 318167011566 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 318167011567 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318167011568 Zn2+ binding site [ion binding]; other site 318167011569 Mg2+ binding site [ion binding]; other site 318167011570 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 318167011571 chorismate binding enzyme; Region: Chorismate_bind; cl10555 318167011572 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 318167011573 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 318167011574 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 318167011575 dimer interface [polypeptide binding]; other site 318167011576 phosphorylation site [posttranslational modification] 318167011577 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 318167011578 ATP binding site [chemical binding]; other site 318167011579 Mg2+ binding site [ion binding]; other site 318167011580 G-X-G motif; other site 318167011581 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318167011582 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167011583 active site 318167011584 phosphorylation site [posttranslational modification] 318167011585 intermolecular recognition site; other site 318167011586 dimerization interface [polypeptide binding]; other site 318167011587 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 318167011588 Walker A motif; other site 318167011589 ATP binding site [chemical binding]; other site 318167011590 Walker B motif; other site 318167011591 arginine finger; other site 318167011592 Helix-turn-helix domains; Region: HTH; cl00088 318167011593 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 318167011594 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 318167011595 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 318167011596 dimer interface [polypeptide binding]; other site 318167011597 conserved gate region; other site 318167011598 putative PBP binding loops; other site 318167011599 ABC-ATPase subunit interface; other site 318167011600 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 318167011601 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 318167011602 Walker A/P-loop; other site 318167011603 ATP binding site [chemical binding]; other site 318167011604 Q-loop/lid; other site 318167011605 ABC transporter signature motif; other site 318167011606 Walker B; other site 318167011607 D-loop; other site 318167011608 H-loop/switch region; other site 318167011609 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 318167011610 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 318167011611 GTP binding site; other site 318167011612 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional; Region: PRK14491 318167011613 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 318167011614 Walker A motif; other site 318167011615 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 318167011616 dimer interface [polypeptide binding]; other site 318167011617 putative functional site; other site 318167011618 putative MPT binding site; other site 318167011619 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 318167011620 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 318167011621 FeS/SAM binding site; other site 318167011622 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 318167011623 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 318167011624 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 318167011625 DNA binding site [nucleotide binding] 318167011626 catalytic residue [active] 318167011627 H2TH interface [polypeptide binding]; other site 318167011628 putative catalytic residues [active] 318167011629 turnover-facilitating residue; other site 318167011630 intercalation triad [nucleotide binding]; other site 318167011631 8OG recognition residue [nucleotide binding]; other site 318167011632 putative reading head residues; other site 318167011633 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 318167011634 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 318167011635 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 318167011636 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 318167011637 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 318167011638 active site 318167011639 (T/H)XGH motif; other site 318167011640 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 318167011641 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 318167011642 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 318167011643 putative active site [active] 318167011644 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 318167011645 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 318167011646 NADP binding site [chemical binding]; other site 318167011647 homopentamer interface [polypeptide binding]; other site 318167011648 substrate binding site [chemical binding]; other site 318167011649 active site 318167011650 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318167011651 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 318167011652 active site 318167011653 nucleotide binding site [chemical binding]; other site 318167011654 HIGH motif; other site 318167011655 KMSKS motif; other site 318167011656 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 318167011657 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 318167011658 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 318167011659 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 318167011660 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 318167011661 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 318167011662 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 318167011663 putative active site [active] 318167011664 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167011665 ATP binding site [chemical binding]; other site 318167011666 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 318167011667 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 318167011668 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167011669 Helix-turn-helix domains; Region: HTH; cl00088 318167011670 Bacterial transcriptional repressor; Region: TetR; pfam13972 318167011671 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 318167011672 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 318167011673 substrate-cofactor binding pocket; other site 318167011674 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167011675 catalytic residue [active] 318167011676 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 318167011677 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167011678 NAD(P) binding site [chemical binding]; other site 318167011679 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 318167011680 active site residue [active] 318167011681 intramembrane serine protease GlpG; Provisional; Region: PRK10907 318167011682 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 318167011683 Rhomboid family; Region: Rhomboid; cl11446 318167011684 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 318167011685 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 318167011686 conserved cys residue [active] 318167011687 DNA polymerase I; Provisional; Region: PRK05755 318167011688 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 318167011689 active site 318167011690 metal binding site 1 [ion binding]; metal-binding site 318167011691 putative 5' ssDNA interaction site; other site 318167011692 metal binding site 3; metal-binding site 318167011693 metal binding site 2 [ion binding]; metal-binding site 318167011694 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 318167011695 putative DNA binding site [nucleotide binding]; other site 318167011696 putative metal binding site [ion binding]; other site 318167011697 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 318167011698 active site 318167011699 catalytic site [active] 318167011700 substrate binding site [chemical binding]; other site 318167011701 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 318167011702 active site 318167011703 DNA binding site [nucleotide binding] 318167011704 catalytic site [active] 318167011705 Predicted GTPase [General function prediction only]; Region: COG0218 318167011706 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 318167011707 G1 box; other site 318167011708 GTP/Mg2+ binding site [chemical binding]; other site 318167011709 Switch I region; other site 318167011710 G2 box; other site 318167011711 G3 box; other site 318167011712 Switch II region; other site 318167011713 G4 box; other site 318167011714 G5 box; other site 318167011715 Cytochrome c; Region: Cytochrom_C; cl11414 318167011716 Cytochrome c; Region: Cytochrom_C; cl11414 318167011717 TFIIB zinc-binding; Region: TF_Zn_Ribbon; pfam08271 318167011718 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167011719 Der GTPase activator (YihI); Region: YihI; cl01172 318167011720 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 318167011721 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 318167011722 putative acyl-acceptor binding pocket; other site 318167011723 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 318167011724 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167011725 nucleophilic elbow; other site 318167011726 catalytic triad; other site 318167011727 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318167011728 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 318167011729 active sites [active] 318167011730 tetramer interface [polypeptide binding]; other site 318167011731 urocanate hydratase; Provisional; Region: PRK05414 318167011732 urocanate hydratase; Region: hutU; TIGR01228 318167011733 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 318167011734 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318167011735 DNA-binding site [nucleotide binding]; DNA binding site 318167011736 UTRA domain; Region: UTRA; cl01230 318167011737 imidazolonepropionase; Validated; Region: PRK09356 318167011738 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 318167011739 active site 318167011740 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 318167011741 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 318167011742 motif II; other site 318167011743 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 318167011744 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 318167011745 active site 318167011746 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 318167011747 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318167011748 putative transposase OrfB; Reviewed; Region: PHA02517 318167011749 Helix-turn-helix domains; Region: HTH; cl00088 318167011750 Protein of unknown function (DUF465); Region: DUF465; cl01070 318167011751 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 318167011752 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 318167011753 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 318167011754 binding surface 318167011755 TPR motif; other site 318167011756 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 318167011757 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 318167011758 motif II; other site 318167011759 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 318167011760 active site 318167011761 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 318167011762 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 318167011763 active site 318167011764 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 318167011765 AMP-binding enzyme; Region: AMP-binding; cl15778 318167011766 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 318167011767 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 318167011768 Walker A/P-loop; other site 318167011769 ATP binding site [chemical binding]; other site 318167011770 Q-loop/lid; other site 318167011771 ABC transporter signature motif; other site 318167011772 Walker B; other site 318167011773 D-loop; other site 318167011774 H-loop/switch region; other site 318167011775 Predicted transcriptional regulators [Transcription]; Region: COG1725 318167011776 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318167011777 DNA-binding site [nucleotide binding]; DNA binding site 318167011778 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 318167011779 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 318167011780 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 318167011781 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 318167011782 Walker A/P-loop; other site 318167011783 ATP binding site [chemical binding]; other site 318167011784 Q-loop/lid; other site 318167011785 ABC transporter signature motif; other site 318167011786 Walker B; other site 318167011787 D-loop; other site 318167011788 H-loop/switch region; other site 318167011789 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 318167011790 ABC-2 type transporter; Region: ABC2_membrane; cl11417 318167011791 phage shock protein C; Region: phageshock_pspC; TIGR02978 318167011792 CHASE4 domain; Region: CHASE4; cl01308 318167011793 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167011794 metal binding site [ion binding]; metal-binding site 318167011795 active site 318167011796 I-site; other site 318167011797 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 318167011798 MPT binding site; other site 318167011799 trimer interface [polypeptide binding]; other site 318167011800 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167011801 Helix-turn-helix domains; Region: HTH; cl00088 318167011802 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167011803 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 318167011804 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 318167011805 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 318167011806 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 318167011807 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 318167011808 putative substrate binding site [chemical binding]; other site 318167011809 putative ATP binding site [chemical binding]; other site 318167011810 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318167011811 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 318167011812 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 318167011813 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 318167011814 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 318167011815 putative substrate translocation pore; other site 318167011816 sucrose phosphorylase; Provisional; Region: PRK13840 318167011817 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 318167011818 Transcriptional regulators [Transcription]; Region: PurR; COG1609 318167011819 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 318167011820 DNA binding site [nucleotide binding] 318167011821 domain linker motif; other site 318167011822 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_3; cd06279 318167011823 putative dimerization interface [polypeptide binding]; other site 318167011824 putative ligand binding site [chemical binding]; other site 318167011825 NlpC/P60 family; Region: NLPC_P60; cl11438 318167011826 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167011827 Helix-turn-helix domains; Region: HTH; cl00088 318167011828 BON domain; Region: BON; cl02771 318167011829 BON domain; Region: BON; cl02771 318167011830 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 318167011831 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 318167011832 Walker A motif; other site 318167011833 ATP binding site [chemical binding]; other site 318167011834 Walker B motif; other site 318167011835 arginine finger; other site 318167011836 Helix-turn-helix domains; Region: HTH; cl00088 318167011837 hypothetical protein; Provisional; Region: PRK12361 318167011838 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 318167011839 active site 318167011840 catalytic residues [active] 318167011841 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 318167011842 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 318167011843 putative substrate translocation pore; other site 318167011844 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318167011845 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 318167011846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167011847 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 318167011848 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 318167011849 Membrane transport protein; Region: Mem_trans; cl09117 318167011850 Low molecular weight phosphatase family; Region: LMWPc; cd00115 318167011851 active site 318167011852 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 318167011853 dimerization interface [polypeptide binding]; other site 318167011854 putative DNA binding site [nucleotide binding]; other site 318167011855 putative Zn2+ binding site [ion binding]; other site 318167011856 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167011857 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 318167011858 active site 318167011859 phosphorylation site [posttranslational modification] 318167011860 intermolecular recognition site; other site 318167011861 dimerization interface [polypeptide binding]; other site 318167011862 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 318167011863 putative active site [active] 318167011864 heme pocket [chemical binding]; other site 318167011865 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167011866 metal binding site [ion binding]; metal-binding site 318167011867 active site 318167011868 I-site; other site 318167011869 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 318167011870 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318167011871 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 318167011872 dimerization interface [polypeptide binding]; other site 318167011873 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 318167011874 dimer interface [polypeptide binding]; other site 318167011875 phosphorylation site [posttranslational modification] 318167011876 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 318167011877 ATP binding site [chemical binding]; other site 318167011878 Mg2+ binding site [ion binding]; other site 318167011879 G-X-G motif; other site 318167011880 Response regulator receiver domain; Region: Response_reg; pfam00072 318167011881 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167011882 active site 318167011883 phosphorylation site [posttranslational modification] 318167011884 intermolecular recognition site; other site 318167011885 dimerization interface [polypeptide binding]; other site 318167011886 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 318167011887 putative binding surface; other site 318167011888 active site 318167011889 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 318167011890 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 318167011891 N-terminal plug; other site 318167011892 ligand-binding site [chemical binding]; other site 318167011893 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 318167011894 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 318167011895 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 318167011896 N-terminal plug; other site 318167011897 ligand-binding site [chemical binding]; other site 318167011898 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 318167011899 putative transposase OrfB; Reviewed; Region: PHA02517 318167011900 HTH-like domain; Region: HTH_21; pfam13276 318167011901 Integrase core domain; Region: rve; cl01316 318167011902 Integrase core domain; Region: rve_3; cl15866 318167011903 Helix-turn-helix domains; Region: HTH; cl00088 318167011904 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 318167011905 putative active site [active] 318167011906 catalytic site [active] 318167011907 HI0933-like protein; Region: HI0933_like; pfam03486 318167011908 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167011909 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 318167011910 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167011911 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 318167011912 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 318167011913 SecA binding site; other site 318167011914 Preprotein binding site; other site 318167011915 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 318167011916 active site residue [active] 318167011917 Sulfatase; Region: Sulfatase; cl10460 318167011918 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 318167011919 AmiB activator; Provisional; Region: PRK11637 318167011920 Divergent polysaccharide deacetylase; Region: Polysacc_deac_2; cl04721 318167011921 Helix-turn-helix domains; Region: HTH; cl00088 318167011922 Rrf2 family protein; Region: rrf2_super; TIGR00738 318167011923 Flagellin N-methylase; Region: FliB; cl00497 318167011924 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 318167011925 active site 318167011926 tetramer interface [polypeptide binding]; other site 318167011927 Integrase core domain; Region: rve; cl01316 318167011928 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 318167011929 4Fe-4S binding domain; Region: Fer4_5; pfam12801 318167011930 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 318167011931 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 318167011932 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 318167011933 substrate binding site [chemical binding]; other site 318167011934 oxyanion hole (OAH) forming residues; other site 318167011935 trimer interface [polypeptide binding]; other site 318167011936 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 318167011937 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 318167011938 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167011939 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167011940 dimer interface [polypeptide binding]; other site 318167011941 putative CheW interface [polypeptide binding]; other site 318167011942 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 318167011943 FMN-binding domain; Region: FMN_bind; cl01081 318167011944 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 318167011945 Predicted methyltransferase [General function prediction only]; Region: COG3897 318167011946 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 318167011947 S-adenosylmethionine binding site [chemical binding]; other site 318167011948 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 318167011949 PUA domain; Region: PUA; cl00607 318167011950 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 318167011951 S-adenosylmethionine binding site [chemical binding]; other site 318167011952 Protein of unknown function (DUF805); Region: DUF805; cl01224 318167011953 Uncharacterized conserved protein [Function unknown]; Region: COG4748 318167011954 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 318167011955 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 318167011956 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 318167011957 glutaminase active site [active] 318167011958 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 318167011959 dimer interface [polypeptide binding]; other site 318167011960 active site 318167011961 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 318167011962 dimer interface [polypeptide binding]; other site 318167011963 active site 318167011964 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 318167011965 Helix-turn-helix domains; Region: HTH; cl00088 318167011966 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 318167011967 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318167011968 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 318167011969 N-terminal plug; other site 318167011970 ligand-binding site [chemical binding]; other site 318167011971 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 318167011972 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 318167011973 Substrate binding site; other site 318167011974 Mg++ binding site; other site 318167011975 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 318167011976 active site 318167011977 substrate binding site [chemical binding]; other site 318167011978 CoA binding site [chemical binding]; other site 318167011979 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 318167011980 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 318167011981 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 318167011982 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 318167011983 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 318167011984 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 318167011985 alpha subunit interaction interface [polypeptide binding]; other site 318167011986 Walker A motif; other site 318167011987 ATP binding site [chemical binding]; other site 318167011988 Walker B motif; other site 318167011989 inhibitor binding site; inhibition site 318167011990 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 318167011991 ATP synthase; Region: ATP-synt; cl00365 318167011992 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 318167011993 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 318167011994 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 318167011995 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 318167011996 beta subunit interaction interface [polypeptide binding]; other site 318167011997 Walker A motif; other site 318167011998 ATP binding site [chemical binding]; other site 318167011999 Walker B motif; other site 318167012000 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 318167012001 Plant ATP synthase F0; Region: YMF19; cl07975 318167012002 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 318167012003 Plant ATP synthase F0; Region: YMF19; cl07975 318167012004 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 318167012005 ATP synthase subunit C; Region: ATP-synt_C; cl00466 318167012006 ATP synthase A chain; Region: ATP-synt_A; cl00413 318167012007 ATP synthase I chain; Region: ATP_synt_I; cl09170 318167012008 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 318167012009 ParB-like nuclease domain; Region: ParBc; cl02129 318167012010 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 318167012011 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 318167012012 P-loop; other site 318167012013 Magnesium ion binding site [ion binding]; other site 318167012014 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 318167012015 Magnesium ion binding site [ion binding]; other site 318167012016 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 318167012017 S-adenosylmethionine binding site [chemical binding]; other site 318167012018 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 318167012019 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167012020 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 318167012021 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 318167012022 Predicted esterase [General function prediction only]; Region: COG0627 318167012023 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 318167012024 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 318167012025 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 318167012026 substrate binding site [chemical binding]; other site 318167012027 catalytic Zn binding site [ion binding]; other site 318167012028 NAD binding site [chemical binding]; other site 318167012029 structural Zn binding site [ion binding]; other site 318167012030 dimer interface [polypeptide binding]; other site 318167012031 LysR family transcriptional regulator; Provisional; Region: PRK14997 318167012032 Helix-turn-helix domains; Region: HTH; cl00088 318167012033 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 318167012034 dimerization interface [polypeptide binding]; other site 318167012035 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 318167012036 active site 318167012037 catalytic site [active] 318167012038 substrate binding site [chemical binding]; other site 318167012039 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 318167012040 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 318167012041 trmE is a tRNA modification GTPase; Region: trmE; cd04164 318167012042 G1 box; other site 318167012043 GTP/Mg2+ binding site [chemical binding]; other site 318167012044 Switch I region; other site 318167012045 G2 box; other site 318167012046 Switch II region; other site 318167012047 G3 box; other site 318167012048 G4 box; other site 318167012049 G5 box; other site 318167012050 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 318167012051 membrane protein insertase; Provisional; Region: PRK01318 318167012052 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 318167012053 Haemolytic domain; Region: Haemolytic; cl00506 318167012054 Ribonuclease P; Region: Ribonuclease_P; cl00457 318167012055 Ribosomal protein L34; Region: Ribosomal_L34; cl00370