-- dump date 20140620_063801 -- class Genbank::misc_feature -- table misc_feature_note -- id note 318167000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 318167000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 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 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 318167000007 Walker B motif; other site 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 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318167000019 Walker A/P-loop; other site 318167000020 ATP binding site [chemical binding]; other site 318167000021 Q-loop/lid; other site 318167000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 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 ATP binding site [chemical binding]; other site 318167000030 Mg2+ binding site [ion binding]; other site 318167000031 G-X-G motif; other site 318167000032 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 318167000033 anchoring element; other site 318167000034 dimer interface [polypeptide binding]; other site 318167000035 ATP binding site [chemical binding]; other site 318167000036 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 318167000037 active site 318167000038 putative metal-binding site [ion binding]; other site 318167000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 318167000040 HDOD domain; Region: HDOD; pfam08668 318167000041 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318167000042 Zn2+ binding site [ion binding]; other site 318167000043 Mg2+ binding site [ion binding]; other site 318167000044 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 318167000045 tRNA binding surface [nucleotide binding]; other site 318167000046 anticodon binding site; other site 318167000047 DALR anticodon binding domain; Region: DALR_1; pfam05746 318167000048 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 318167000049 dimer interface [polypeptide binding]; other site 318167000050 motif 1; other site 318167000051 active site 318167000052 motif 2; other site 318167000053 motif 3; other site 318167000054 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 318167000055 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318167000056 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 318167000057 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318167000058 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 318167000059 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 318167000060 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 318167000061 active site 318167000062 MOSC domain; Region: MOSC; pfam03473 318167000063 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 318167000064 CPxP motif; other site 318167000065 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 318167000066 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 318167000067 dimer interface [polypeptide binding]; other site 318167000068 active site 318167000069 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 318167000070 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 318167000071 substrate binding site [chemical binding]; other site 318167000072 oxyanion hole (OAH) forming residues; other site 318167000073 trimer interface [polypeptide binding]; other site 318167000074 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 318167000075 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318167000076 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318167000077 proline dipeptidase; Provisional; Region: PRK13607 318167000078 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 318167000079 active site 318167000080 Uncharacterized conserved protein [Function unknown]; Region: COG1739 318167000081 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 318167000082 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 318167000083 Cation transport protein; Region: TrkH; cl17365 318167000084 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 318167000085 Flavodoxin domain; Region: Flavodoxin_5; cl17428 318167000086 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 318167000087 dimerization interface [polypeptide binding]; other site 318167000088 putative DNA binding site [nucleotide binding]; other site 318167000089 putative Zn2+ binding site [ion binding]; other site 318167000090 Flavodoxin domain; Region: Flavodoxin_5; cl17428 318167000091 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 318167000092 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 318167000093 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 318167000094 TrkA-N domain; Region: TrkA_N; pfam02254 318167000095 TrkA-C domain; Region: TrkA_C; pfam02080 318167000096 TrkA-N domain; Region: TrkA_N; pfam02254 318167000097 TrkA-C domain; Region: TrkA_C; pfam02080 318167000098 16S rRNA methyltransferase B; Provisional; Region: PRK10901 318167000099 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 318167000100 putative RNA binding site [nucleotide binding]; other site 318167000101 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 318167000102 S-adenosylmethionine binding site [chemical binding]; other site 318167000103 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 318167000104 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 318167000105 putative active site [active] 318167000106 substrate binding site [chemical binding]; other site 318167000107 putative cosubstrate binding site; other site 318167000108 catalytic site [active] 318167000109 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 318167000110 substrate binding site [chemical binding]; other site 318167000111 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 318167000112 active site 318167000113 catalytic residues [active] 318167000114 metal binding site [ion binding]; metal-binding site 318167000115 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 318167000116 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318167000117 DNA protecting protein DprA; Region: dprA; TIGR00732 318167000118 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 318167000119 Protein of unknown function (DUF494); Region: DUF494; cl01103 318167000120 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 318167000121 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 318167000122 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 318167000123 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 318167000124 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 318167000125 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 318167000126 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 318167000127 apolar tunnel; other site 318167000128 heme binding site [chemical binding]; other site 318167000129 dimerization interface [polypeptide binding]; other site 318167000130 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 318167000131 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 318167000132 active site 318167000133 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 318167000134 active site 318167000135 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 318167000136 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 318167000137 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 318167000138 shikimate binding site; other site 318167000139 NAD(P) binding site [chemical binding]; other site 318167000140 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 318167000141 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 318167000142 GAF domain; Region: GAF; pfam01590 318167000143 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167000144 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167000145 metal binding site [ion binding]; metal-binding site 318167000146 active site 318167000147 I-site; other site 318167000148 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 318167000149 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 318167000150 trimer interface [polypeptide binding]; other site 318167000151 putative metal binding site [ion binding]; other site 318167000152 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 318167000153 PAS fold; Region: PAS_3; pfam08447 318167000154 putative active site [active] 318167000155 heme pocket [chemical binding]; other site 318167000156 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167000157 metal binding site [ion binding]; metal-binding site 318167000158 active site 318167000159 I-site; other site 318167000160 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 318167000161 lysophospholipase L2; Provisional; Region: PRK10749 318167000162 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 318167000163 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 318167000164 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 318167000165 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 318167000166 active site 318167000167 purine riboside binding site [chemical binding]; other site 318167000168 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 318167000169 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 318167000170 FeS/SAM binding site; other site 318167000171 HemN C-terminal domain; Region: HemN_C; pfam06969 318167000172 NRDE protein; Region: NRDE; cl01315 318167000173 putative antibiotic transporter; Provisional; Region: PRK10739 318167000174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 318167000175 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 318167000176 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 318167000177 FOG: PKD repeat [General function prediction only]; Region: COG3291 318167000178 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 318167000179 Chorismate lyase; Region: Chor_lyase; cl01230 318167000180 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 318167000181 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 318167000182 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 318167000183 S-adenosylmethionine binding site [chemical binding]; other site 318167000184 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 318167000185 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 318167000186 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 318167000187 Ferredoxin [Energy production and conversion]; Region: COG1146 318167000188 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 318167000189 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 318167000190 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 318167000191 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 318167000192 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 318167000193 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 318167000194 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 318167000195 [4Fe-4S] binding site [ion binding]; other site 318167000196 molybdopterin cofactor binding site; other site 318167000197 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 318167000198 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 318167000199 molybdopterin cofactor binding site; other site 318167000200 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 318167000201 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 318167000202 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 318167000203 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 318167000204 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 318167000205 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; cl17442 318167000206 thioester formation/cholesterol transfer; other site 318167000207 EcsC protein family; Region: EcsC; pfam12787 318167000208 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 318167000209 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 318167000210 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167000211 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 318167000212 Predicted membrane protein (DUF2306); Region: DUF2306; pfam10067 318167000213 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167000214 Coenzyme A binding pocket [chemical binding]; other site 318167000215 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 318167000216 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 318167000217 Tetratricopeptide repeat; Region: TPR_12; pfam13424 318167000218 binding surface 318167000219 TPR motif; other site 318167000220 Tetratricopeptide repeat; Region: TPR_12; pfam13424 318167000221 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 318167000222 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 318167000223 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 318167000224 dimer interface [polypeptide binding]; other site 318167000225 active site 318167000226 metal binding site [ion binding]; metal-binding site 318167000227 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 318167000228 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 318167000229 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318167000230 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318167000231 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 318167000232 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 318167000233 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 318167000234 FeS/SAM binding site; other site 318167000235 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 318167000236 substrate binding site [chemical binding]; other site 318167000237 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 318167000238 ATP binding site [chemical binding]; other site 318167000239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 318167000240 MOSC domain; Region: MOSC; pfam03473 318167000241 3-alpha domain; Region: 3-alpha; pfam03475 318167000242 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 318167000243 Cache domain; Region: Cache_1; pfam02743 318167000244 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 318167000245 dimerization interface [polypeptide binding]; other site 318167000246 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167000247 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167000248 dimer interface [polypeptide binding]; other site 318167000249 putative CheW interface [polypeptide binding]; other site 318167000250 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 318167000251 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 318167000252 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 318167000253 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 318167000254 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 318167000255 FeS/SAM binding site; other site 318167000256 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 318167000257 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 318167000258 trimer interface [polypeptide binding]; other site 318167000259 dimer interface [polypeptide binding]; other site 318167000260 putative active site [active] 318167000261 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 318167000262 MoaE interaction surface [polypeptide binding]; other site 318167000263 MoeB interaction surface [polypeptide binding]; other site 318167000264 thiocarboxylated glycine; other site 318167000265 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 318167000266 MoaE homodimer interface [polypeptide binding]; other site 318167000267 MoaD interaction [polypeptide binding]; other site 318167000268 active site residues [active] 318167000269 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 318167000270 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 318167000271 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 318167000272 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 318167000273 dimer interface [polypeptide binding]; other site 318167000274 conserved gate region; other site 318167000275 putative PBP binding loops; other site 318167000276 ABC-ATPase subunit interface; other site 318167000277 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318167000278 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 318167000279 Walker A/P-loop; other site 318167000280 ATP binding site [chemical binding]; other site 318167000281 Q-loop/lid; other site 318167000282 ABC transporter signature motif; other site 318167000283 Walker B; other site 318167000284 D-loop; other site 318167000285 H-loop/switch region; other site 318167000286 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318167000287 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167000288 active site 318167000289 phosphorylation site [posttranslational modification] 318167000290 intermolecular recognition site; other site 318167000291 dimerization interface [polypeptide binding]; other site 318167000292 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 318167000293 DNA binding site [nucleotide binding] 318167000294 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318167000295 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 318167000296 dimerization interface [polypeptide binding]; other site 318167000297 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 318167000298 ATP binding site [chemical binding]; other site 318167000299 Mg2+ binding site [ion binding]; other site 318167000300 G-X-G motif; other site 318167000301 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 318167000302 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 318167000303 active site 318167000304 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167000305 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167000306 metal binding site [ion binding]; metal-binding site 318167000307 active site 318167000308 I-site; other site 318167000309 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 318167000310 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 318167000311 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 318167000312 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 318167000313 ATP binding site [chemical binding]; other site 318167000314 substrate interface [chemical binding]; other site 318167000315 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 318167000316 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 318167000317 dimer interface [polypeptide binding]; other site 318167000318 putative functional site; other site 318167000319 putative MPT binding site; other site 318167000320 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 318167000321 GIY-YIG motif/motif A; other site 318167000322 putative active site [active] 318167000323 putative metal binding site [ion binding]; other site 318167000324 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 318167000325 putative active site [active] 318167000326 Zn binding site [ion binding]; other site 318167000327 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 318167000328 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 318167000329 active site 318167000330 substrate-binding site [chemical binding]; other site 318167000331 metal-binding site [ion binding] 318167000332 ATP binding site [chemical binding]; other site 318167000333 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 318167000334 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 318167000335 dimerization interface [polypeptide binding]; other site 318167000336 domain crossover interface; other site 318167000337 redox-dependent activation switch; other site 318167000338 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 318167000339 RNA binding surface [nucleotide binding]; other site 318167000340 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 318167000341 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 318167000342 type II secretion system protein D; Region: type_II_gspD; TIGR02517 318167000343 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 318167000344 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 318167000345 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 318167000346 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 318167000347 type II secretion system protein E; Region: type_II_gspE; TIGR02533 318167000348 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 318167000349 Walker A motif; other site 318167000350 ATP binding site [chemical binding]; other site 318167000351 Walker B motif; other site 318167000352 type II secretion system protein F; Region: GspF; TIGR02120 318167000353 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 318167000354 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 318167000355 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 318167000356 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 318167000357 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 318167000358 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 318167000359 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 318167000360 Type II transport protein GspH; Region: GspH; pfam12019 318167000361 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 318167000362 type II secretion system protein I; Region: gspI; TIGR01707 318167000363 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 318167000364 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 318167000365 type II secretion system protein J; Region: gspJ; TIGR01711 318167000366 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 318167000367 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 318167000368 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 318167000369 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 318167000370 GspL periplasmic domain; Region: GspL_C; pfam12693 318167000371 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 318167000372 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 318167000373 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 318167000374 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 318167000375 motif II; other site 318167000376 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 318167000377 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 318167000378 dimer interface [polypeptide binding]; other site 318167000379 ADP-ribose binding site [chemical binding]; other site 318167000380 active site 318167000381 nudix motif; other site 318167000382 metal binding site [ion binding]; metal-binding site 318167000383 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 318167000384 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 318167000385 active site 318167000386 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; cl00125 318167000387 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 318167000388 active site residue [active] 318167000389 selenophosphate synthetase; Provisional; Region: PRK00943 318167000390 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 318167000391 dimerization interface [polypeptide binding]; other site 318167000392 putative ATP binding site [chemical binding]; other site 318167000393 WHG domain; Region: WHG; pfam13305 318167000394 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 318167000395 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 318167000396 putative acyl-acceptor binding pocket; other site 318167000397 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 318167000398 Fatty acid desaturase; Region: FA_desaturase; pfam00487 318167000399 Di-iron ligands [ion binding]; other site 318167000400 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 318167000401 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318167000402 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 318167000403 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 318167000404 S-adenosylmethionine binding site [chemical binding]; other site 318167000405 glutamate racemase; Provisional; Region: PRK00865 318167000406 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 318167000407 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 318167000408 DDE superfamily endonuclease; Region: DDE_3; pfam13358 318167000409 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 318167000410 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 318167000411 Homeodomain-like domain; Region: HTH_23; pfam13384 318167000412 Winged helix-turn helix; Region: HTH_33; pfam13592 318167000413 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 318167000414 FAD binding domain; Region: FAD_binding_4; pfam01565 318167000415 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 318167000416 Biotin operon repressor [Transcription]; Region: BirA; COG1654 318167000417 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 318167000418 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 318167000419 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 318167000420 pantothenate kinase; Provisional; Region: PRK05439 318167000421 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 318167000422 ATP-binding site [chemical binding]; other site 318167000423 CoA-binding site [chemical binding]; other site 318167000424 Mg2+-binding site [ion binding]; other site 318167000425 elongation factor Tu; Reviewed; Region: PRK00049 318167000426 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 318167000427 G1 box; other site 318167000428 GEF interaction site [polypeptide binding]; other site 318167000429 GTP/Mg2+ binding site [chemical binding]; other site 318167000430 Switch I region; other site 318167000431 G2 box; other site 318167000432 G3 box; other site 318167000433 Switch II region; other site 318167000434 G4 box; other site 318167000435 G5 box; other site 318167000436 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 318167000437 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 318167000438 Antibiotic Binding Site [chemical binding]; other site 318167000439 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 318167000440 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 318167000441 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 318167000442 putative homodimer interface [polypeptide binding]; other site 318167000443 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 318167000444 heterodimer interface [polypeptide binding]; other site 318167000445 homodimer interface [polypeptide binding]; other site 318167000446 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 318167000447 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 318167000448 23S rRNA interface [nucleotide binding]; other site 318167000449 L7/L12 interface [polypeptide binding]; other site 318167000450 putative thiostrepton binding site; other site 318167000451 L25 interface [polypeptide binding]; other site 318167000452 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 318167000453 mRNA/rRNA interface [nucleotide binding]; other site 318167000454 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 318167000455 23S rRNA interface [nucleotide binding]; other site 318167000456 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 318167000457 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 318167000458 core dimer interface [polypeptide binding]; other site 318167000459 peripheral dimer interface [polypeptide binding]; other site 318167000460 L10 interface [polypeptide binding]; other site 318167000461 L11 interface [polypeptide binding]; other site 318167000462 putative EF-Tu interaction site [polypeptide binding]; other site 318167000463 putative EF-G interaction site [polypeptide binding]; other site 318167000464 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 318167000465 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 318167000466 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 318167000467 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 318167000468 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 318167000469 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 318167000470 RPB3 interaction site [polypeptide binding]; other site 318167000471 RPB1 interaction site [polypeptide binding]; other site 318167000472 RPB11 interaction site [polypeptide binding]; other site 318167000473 RPB10 interaction site [polypeptide binding]; other site 318167000474 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 318167000475 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 318167000476 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 318167000477 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 318167000478 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 318167000479 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 318167000480 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 318167000481 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 318167000482 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 318167000483 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 318167000484 DNA binding site [nucleotide binding] 318167000485 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 318167000486 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 318167000487 S17 interaction site [polypeptide binding]; other site 318167000488 S8 interaction site; other site 318167000489 16S rRNA interaction site [nucleotide binding]; other site 318167000490 streptomycin interaction site [chemical binding]; other site 318167000491 23S rRNA interaction site [nucleotide binding]; other site 318167000492 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 318167000493 30S ribosomal protein S7; Validated; Region: PRK05302 318167000494 elongation factor G; Reviewed; Region: PRK00007 318167000495 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 318167000496 G1 box; other site 318167000497 putative GEF interaction site [polypeptide binding]; other site 318167000498 GTP/Mg2+ binding site [chemical binding]; other site 318167000499 Switch I region; other site 318167000500 G2 box; other site 318167000501 G3 box; other site 318167000502 Switch II region; other site 318167000503 G4 box; other site 318167000504 G5 box; other site 318167000505 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 318167000506 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 318167000507 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 318167000508 elongation factor Tu; Reviewed; Region: PRK00049 318167000509 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 318167000510 G1 box; other site 318167000511 GEF interaction site [polypeptide binding]; other site 318167000512 GTP/Mg2+ binding site [chemical binding]; other site 318167000513 Switch I region; other site 318167000514 G2 box; other site 318167000515 G3 box; other site 318167000516 Switch II region; other site 318167000517 G4 box; other site 318167000518 G5 box; other site 318167000519 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 318167000520 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 318167000521 Antibiotic Binding Site [chemical binding]; other site 318167000522 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 318167000523 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 318167000524 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 318167000525 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 318167000526 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 318167000527 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 318167000528 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 318167000529 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 318167000530 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 318167000531 putative translocon binding site; other site 318167000532 protein-rRNA interface [nucleotide binding]; other site 318167000533 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 318167000534 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 318167000535 G-X-X-G motif; other site 318167000536 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 318167000537 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 318167000538 23S rRNA interface [nucleotide binding]; other site 318167000539 5S rRNA interface [nucleotide binding]; other site 318167000540 putative antibiotic binding site [chemical binding]; other site 318167000541 L25 interface [polypeptide binding]; other site 318167000542 L27 interface [polypeptide binding]; other site 318167000543 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 318167000544 23S rRNA interface [nucleotide binding]; other site 318167000545 putative translocon interaction site; other site 318167000546 signal recognition particle (SRP54) interaction site; other site 318167000547 L23 interface [polypeptide binding]; other site 318167000548 trigger factor interaction site; other site 318167000549 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 318167000550 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 318167000551 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 318167000552 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 318167000553 RNA binding site [nucleotide binding]; other site 318167000554 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 318167000555 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 318167000556 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 318167000557 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 318167000558 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 318167000559 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 318167000560 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 318167000561 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 318167000562 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 318167000563 5S rRNA interface [nucleotide binding]; other site 318167000564 23S rRNA interface [nucleotide binding]; other site 318167000565 L5 interface [polypeptide binding]; other site 318167000566 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 318167000567 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 318167000568 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 318167000569 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 318167000570 23S rRNA binding site [nucleotide binding]; other site 318167000571 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 318167000572 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 318167000573 SecY translocase; Region: SecY; pfam00344 318167000574 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 318167000575 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 318167000576 30S ribosomal protein S13; Region: bact_S13; TIGR03631 318167000577 30S ribosomal protein S11; Validated; Region: PRK05309 318167000578 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 318167000579 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 318167000580 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 318167000581 RNA binding surface [nucleotide binding]; other site 318167000582 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 318167000583 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 318167000584 alphaNTD homodimer interface [polypeptide binding]; other site 318167000585 alphaNTD - beta interaction site [polypeptide binding]; other site 318167000586 alphaNTD - beta' interaction site [polypeptide binding]; other site 318167000587 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 318167000588 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 318167000589 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 318167000590 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 318167000591 heme exporter protein CcmC; Region: ccmC; TIGR01191 318167000592 heme exporter protein CcmB; Region: ccmB; TIGR01190 318167000593 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 318167000594 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318167000595 Walker A/P-loop; other site 318167000596 ATP binding site [chemical binding]; other site 318167000597 Q-loop/lid; other site 318167000598 ABC transporter signature motif; other site 318167000599 Walker B; other site 318167000600 D-loop; other site 318167000601 H-loop/switch region; other site 318167000602 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 318167000603 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 318167000604 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 318167000605 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 318167000606 binding surface 318167000607 TPR motif; other site 318167000608 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 318167000609 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 318167000610 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 318167000611 catalytic residues [active] 318167000612 central insert; other site 318167000613 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 318167000614 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 318167000615 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 318167000616 catalytic residues [active] 318167000617 competence damage-inducible protein A; Provisional; Region: PRK00549 318167000618 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 318167000619 putative MPT binding site; other site 318167000620 Competence-damaged protein; Region: CinA; pfam02464 318167000621 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 318167000622 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 318167000623 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 318167000624 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 318167000625 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 318167000626 acetylornithine deacetylase; Provisional; Region: PRK05111 318167000627 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 318167000628 metal binding site [ion binding]; metal-binding site 318167000629 putative dimer interface [polypeptide binding]; other site 318167000630 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 318167000631 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 318167000632 acetylglutamate kinase; Provisional; Region: PRK00942 318167000633 nucleotide binding site [chemical binding]; other site 318167000634 substrate binding site [chemical binding]; other site 318167000635 ornithine carbamoyltransferase; Provisional; Region: PRK14805 318167000636 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 318167000637 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 318167000638 argininosuccinate synthase; Provisional; Region: PRK13820 318167000639 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 318167000640 ANP binding site [chemical binding]; other site 318167000641 Substrate Binding Site II [chemical binding]; other site 318167000642 Substrate Binding Site I [chemical binding]; other site 318167000643 argininosuccinate lyase; Provisional; Region: PRK04833 318167000644 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 318167000645 active sites [active] 318167000646 tetramer interface [polypeptide binding]; other site 318167000647 PAS domain; Region: PAS_9; pfam13426 318167000648 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 318167000649 putative active site [active] 318167000650 heme pocket [chemical binding]; other site 318167000651 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167000652 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167000653 metal binding site [ion binding]; metal-binding site 318167000654 active site 318167000655 I-site; other site 318167000656 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318167000657 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 318167000658 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 318167000659 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318167000660 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318167000661 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 318167000662 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 318167000663 catalytic loop [active] 318167000664 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 318167000665 iron binding site [ion binding]; other site 318167000666 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 318167000667 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 318167000668 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 318167000669 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 318167000670 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 318167000671 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 318167000672 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 318167000673 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 318167000674 Pirin-related protein [General function prediction only]; Region: COG1741 318167000675 Pirin; Region: Pirin; pfam02678 318167000676 DoxX; Region: DoxX; pfam07681 318167000677 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167000678 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 318167000679 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 318167000680 putative dimerization interface [polypeptide binding]; other site 318167000681 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 318167000682 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 318167000683 putative substrate translocation pore; other site 318167000684 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167000685 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167000686 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 318167000687 dimerization interface [polypeptide binding]; other site 318167000688 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 318167000689 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 318167000690 active site 318167000691 catalytic tetrad [active] 318167000692 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 318167000693 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 318167000694 DNA binding residues [nucleotide binding] 318167000695 dimer interface [polypeptide binding]; other site 318167000696 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 318167000697 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 318167000698 metal-binding site [ion binding] 318167000699 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 318167000700 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 318167000701 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 318167000702 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 318167000703 catalytic triad [active] 318167000704 dimer interface [polypeptide binding]; other site 318167000705 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 318167000706 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 318167000707 dimerization interface [polypeptide binding]; other site 318167000708 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167000709 dimer interface [polypeptide binding]; other site 318167000710 putative CheW interface [polypeptide binding]; other site 318167000711 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 318167000712 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 318167000713 dimerization interface [polypeptide binding]; other site 318167000714 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 318167000715 dimer interface [polypeptide binding]; other site 318167000716 phosphorylation site [posttranslational modification] 318167000717 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 318167000718 ATP binding site [chemical binding]; other site 318167000719 Mg2+ binding site [ion binding]; other site 318167000720 G-X-G motif; other site 318167000721 osmolarity response regulator; Provisional; Region: ompR; PRK09468 318167000722 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167000723 active site 318167000724 phosphorylation site [posttranslational modification] 318167000725 intermolecular recognition site; other site 318167000726 dimerization interface [polypeptide binding]; other site 318167000727 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 318167000728 DNA binding site [nucleotide binding] 318167000729 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 318167000730 UbiA prenyltransferase family; Region: UbiA; pfam01040 318167000731 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 318167000732 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 318167000733 Subunit I/III interface [polypeptide binding]; other site 318167000734 Subunit III/IV interface [polypeptide binding]; other site 318167000735 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 318167000736 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 318167000737 D-pathway; other site 318167000738 Putative ubiquinol binding site [chemical binding]; other site 318167000739 Low-spin heme (heme b) binding site [chemical binding]; other site 318167000740 Putative water exit pathway; other site 318167000741 Binuclear center (heme o3/CuB) [ion binding]; other site 318167000742 K-pathway; other site 318167000743 Putative proton exit pathway; other site 318167000744 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 318167000745 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 318167000746 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 318167000747 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167000748 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318167000749 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 318167000750 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 318167000751 putative NAD(P) binding site [chemical binding]; other site 318167000752 RecX family; Region: RecX; pfam02631 318167000753 RecX family; Region: RecX; pfam02631 318167000754 fumarate hydratase; Reviewed; Region: fumC; PRK00485 318167000755 Class II fumarases; Region: Fumarase_classII; cd01362 318167000756 active site 318167000757 tetramer interface [polypeptide binding]; other site 318167000758 aconitate hydratase; Validated; Region: PRK09277 318167000759 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 318167000760 substrate binding site [chemical binding]; other site 318167000761 ligand binding site [chemical binding]; other site 318167000762 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 318167000763 substrate binding site [chemical binding]; other site 318167000764 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 318167000765 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 318167000766 acetoin reductases; Region: 23BDH; TIGR02415 318167000767 NAD binding site [chemical binding]; other site 318167000768 homotetramer interface [polypeptide binding]; other site 318167000769 homodimer interface [polypeptide binding]; other site 318167000770 active site 318167000771 substrate binding site [chemical binding]; other site 318167000772 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 318167000773 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 318167000774 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 318167000775 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 318167000776 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 318167000777 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 318167000778 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 318167000779 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 318167000780 RNA binding site [nucleotide binding]; other site 318167000781 putative metal dependent hydrolase; Provisional; Region: PRK11598 318167000782 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 318167000783 Sulfatase; Region: Sulfatase; pfam00884 318167000784 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 318167000785 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318167000786 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167000787 active site 318167000788 phosphorylation site [posttranslational modification] 318167000789 intermolecular recognition site; other site 318167000790 dimerization interface [polypeptide binding]; other site 318167000791 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 318167000792 DNA binding site [nucleotide binding] 318167000793 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318167000794 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 318167000795 dimer interface [polypeptide binding]; other site 318167000796 phosphorylation site [posttranslational modification] 318167000797 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 318167000798 ATP binding site [chemical binding]; other site 318167000799 Mg2+ binding site [ion binding]; other site 318167000800 G-X-G motif; other site 318167000801 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 318167000802 Sulfatase; Region: Sulfatase; pfam00884 318167000803 carboxylesterase BioH; Provisional; Region: PRK10349 318167000804 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 318167000805 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 318167000806 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 318167000807 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 318167000808 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 318167000809 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 318167000810 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 318167000811 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 318167000812 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 318167000813 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 318167000814 Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u4_5s; cd10973 318167000815 putative active site [active] 318167000816 putative metal binding site [ion binding]; other site 318167000817 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 318167000818 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 318167000819 Cu(I) binding site [ion binding]; other site 318167000820 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 318167000821 UbiA prenyltransferase family; Region: UbiA; pfam01040 318167000822 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 318167000823 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 318167000824 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 318167000825 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 318167000826 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 318167000827 Subunit III/VIIa interface [polypeptide binding]; other site 318167000828 Phospholipid binding site [chemical binding]; other site 318167000829 Subunit I/III interface [polypeptide binding]; other site 318167000830 Subunit III/VIb interface [polypeptide binding]; other site 318167000831 Subunit III/VIa interface; other site 318167000832 Subunit III/Vb interface [polypeptide binding]; other site 318167000833 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 318167000834 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 318167000835 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 318167000836 Subunit I/III interface [polypeptide binding]; other site 318167000837 D-pathway; other site 318167000838 Subunit I/VIIc interface [polypeptide binding]; other site 318167000839 Subunit I/IV interface [polypeptide binding]; other site 318167000840 Subunit I/II interface [polypeptide binding]; other site 318167000841 Low-spin heme (heme a) binding site [chemical binding]; other site 318167000842 Subunit I/VIIa interface [polypeptide binding]; other site 318167000843 Subunit I/VIa interface [polypeptide binding]; other site 318167000844 Dimer interface; other site 318167000845 Putative water exit pathway; other site 318167000846 Binuclear center (heme a3/CuB) [ion binding]; other site 318167000847 K-pathway; other site 318167000848 Subunit I/Vb interface [polypeptide binding]; other site 318167000849 Putative proton exit pathway; other site 318167000850 Subunit I/VIb interface; other site 318167000851 Subunit I/VIc interface [polypeptide binding]; other site 318167000852 Electron transfer pathway; other site 318167000853 Subunit I/VIIIb interface [polypeptide binding]; other site 318167000854 Subunit I/VIIb interface [polypeptide binding]; other site 318167000855 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 318167000856 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 318167000857 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 318167000858 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 318167000859 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 318167000860 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 318167000861 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 318167000862 Cell division inhibitor SulA; Region: SulA; cl01880 318167000863 LexA repressor; Validated; Region: PRK00215 318167000864 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 318167000865 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 318167000866 Catalytic site [active] 318167000867 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 318167000868 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 318167000869 putative acyl-acceptor binding pocket; other site 318167000870 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 318167000871 aromatic amino acid transport protein; Region: araaP; TIGR00837 318167000872 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 318167000873 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167000874 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 318167000875 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167000876 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 318167000877 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 318167000878 HlyD family secretion protein; Region: HlyD_3; pfam13437 318167000879 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 318167000880 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 318167000881 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 318167000882 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 318167000883 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 318167000884 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 318167000885 S-adenosylmethionine binding site [chemical binding]; other site 318167000886 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 318167000887 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 318167000888 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 318167000889 P loop; other site 318167000890 GTP binding site [chemical binding]; other site 318167000891 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 318167000892 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318167000893 Walker A/P-loop; other site 318167000894 ATP binding site [chemical binding]; other site 318167000895 Q-loop/lid; other site 318167000896 ABC transporter signature motif; other site 318167000897 Walker B; other site 318167000898 D-loop; other site 318167000899 H-loop/switch region; other site 318167000900 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 318167000901 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 318167000902 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 318167000903 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167000904 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 318167000905 DNA binding residues [nucleotide binding] 318167000906 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 318167000907 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 318167000908 acyl-activating enzyme (AAE) consensus motif; other site 318167000909 putative AMP binding site [chemical binding]; other site 318167000910 putative active site [active] 318167000911 putative CoA binding site [chemical binding]; other site 318167000912 O-succinylbenzoate synthase; Provisional; Region: PRK05105 318167000913 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 318167000914 active site 318167000915 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...; Region: Lipase; cl14883 318167000916 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 318167000917 nucleophilic elbow; other site 318167000918 catalytic triad; other site 318167000919 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 318167000920 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 318167000921 dimer interface [polypeptide binding]; other site 318167000922 tetramer interface [polypeptide binding]; other site 318167000923 PYR/PP interface [polypeptide binding]; other site 318167000924 TPP binding site [chemical binding]; other site 318167000925 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 318167000926 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 318167000927 TPP-binding site; other site 318167000928 HDOD domain; Region: HDOD; pfam08668 318167000929 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 318167000930 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 318167000931 putative DNA binding site [nucleotide binding]; other site 318167000932 putative Zn2+ binding site [ion binding]; other site 318167000933 AsnC family; Region: AsnC_trans_reg; pfam01037 318167000934 putative transporter; Provisional; Region: PRK11021 318167000935 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 318167000936 putative metal binding site [ion binding]; other site 318167000937 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 318167000938 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 318167000939 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 318167000940 Sel1-like repeats; Region: SEL1; smart00671 318167000941 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 318167000942 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 318167000943 TrkA-C domain; Region: TrkA_C; pfam02080 318167000944 TrkA-C domain; Region: TrkA_C; pfam02080 318167000945 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 318167000946 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 318167000947 NADH(P)-binding; Region: NAD_binding_10; pfam13460 318167000948 NAD(P) binding site [chemical binding]; other site 318167000949 putative active site [active] 318167000950 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 318167000951 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167000952 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 318167000953 substrate binding pocket [chemical binding]; other site 318167000954 dimerization interface [polypeptide binding]; other site 318167000955 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 318167000956 putative substrate translocation pore; other site 318167000957 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 318167000958 DTW domain; Region: DTW; cl01221 318167000959 Methyltransferase domain; Region: Methyltransf_23; pfam13489 318167000960 Methyltransferase domain; Region: Methyltransf_11; pfam08241 318167000961 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 318167000962 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 318167000963 metal binding site [ion binding]; metal-binding site 318167000964 putative dimer interface [polypeptide binding]; other site 318167000965 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 318167000966 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 318167000967 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 318167000968 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 318167000969 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 318167000970 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 318167000971 Protein of unknown function (DUF2956); Region: DUF2956; pfam11169 318167000972 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 318167000973 BON domain; Region: BON; pfam04972 318167000974 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 318167000975 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318167000976 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 318167000977 two-component sensor protein; Provisional; Region: cpxA; PRK09470 318167000978 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 318167000979 dimerization interface [polypeptide binding]; other site 318167000980 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 318167000981 dimer interface [polypeptide binding]; other site 318167000982 phosphorylation site [posttranslational modification] 318167000983 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 318167000984 ATP binding site [chemical binding]; other site 318167000985 Mg2+ binding site [ion binding]; other site 318167000986 G-X-G motif; other site 318167000987 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167000988 active site 318167000989 phosphorylation site [posttranslational modification] 318167000990 intermolecular recognition site; other site 318167000991 dimerization interface [polypeptide binding]; other site 318167000992 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 318167000993 DNA binding site [nucleotide binding] 318167000994 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 318167000995 catalytic residues [active] 318167000996 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 318167000997 dimer interface [polypeptide binding]; other site 318167000998 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 318167000999 Cation efflux family; Region: Cation_efflux; cl00316 318167001000 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 318167001001 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 318167001002 E3 interaction surface; other site 318167001003 lipoyl attachment site [posttranslational modification]; other site 318167001004 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 318167001005 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 318167001006 alpha subunit interface [polypeptide binding]; other site 318167001007 TPP binding site [chemical binding]; other site 318167001008 heterodimer interface [polypeptide binding]; other site 318167001009 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 318167001010 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 318167001011 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 318167001012 tetramer interface [polypeptide binding]; other site 318167001013 TPP-binding site [chemical binding]; other site 318167001014 heterodimer interface [polypeptide binding]; other site 318167001015 phosphorylation loop region [posttranslational modification] 318167001016 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 318167001017 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167001018 active site 318167001019 phosphorylation site [posttranslational modification] 318167001020 intermolecular recognition site; other site 318167001021 dimerization interface [polypeptide binding]; other site 318167001022 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 318167001023 Walker A motif; other site 318167001024 ATP binding site [chemical binding]; other site 318167001025 Walker B motif; other site 318167001026 arginine finger; other site 318167001027 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318167001028 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 318167001029 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 318167001030 dimer interface [polypeptide binding]; other site 318167001031 phosphorylation site [posttranslational modification] 318167001032 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 318167001033 ATP binding site [chemical binding]; other site 318167001034 Mg2+ binding site [ion binding]; other site 318167001035 G-X-G motif; other site 318167001036 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 318167001037 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 318167001038 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 318167001039 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 318167001040 G1 box; other site 318167001041 putative GEF interaction site [polypeptide binding]; other site 318167001042 GTP/Mg2+ binding site [chemical binding]; other site 318167001043 Switch I region; other site 318167001044 G2 box; other site 318167001045 G3 box; other site 318167001046 Switch II region; other site 318167001047 G4 box; other site 318167001048 G5 box; other site 318167001049 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 318167001050 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 318167001051 glutamine synthetase; Provisional; Region: glnA; PRK09469 318167001052 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 318167001053 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 318167001054 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167001055 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167001056 I-site; other site 318167001057 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 318167001058 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 318167001059 putative DNA binding site [nucleotide binding]; other site 318167001060 putative Zn2+ binding site [ion binding]; other site 318167001061 AsnC family; Region: AsnC_trans_reg; pfam01037 318167001062 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 318167001063 hypothetical protein; Reviewed; Region: PRK01637 318167001064 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 318167001065 putative active site [active] 318167001066 dimerization interface [polypeptide binding]; other site 318167001067 putative tRNAtyr binding site [nucleotide binding]; other site 318167001068 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 318167001069 azoreductase; Reviewed; Region: PRK00170 318167001070 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 318167001071 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 318167001072 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 318167001073 Cu(I) binding site [ion binding]; other site 318167001074 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167001075 dimer interface [polypeptide binding]; other site 318167001076 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 318167001077 putative CheW interface [polypeptide binding]; other site 318167001078 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 318167001079 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 318167001080 dimer interface [polypeptide binding]; other site 318167001081 active site 318167001082 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 318167001083 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 318167001084 NAD(P) binding site [chemical binding]; other site 318167001085 homotetramer interface [polypeptide binding]; other site 318167001086 homodimer interface [polypeptide binding]; other site 318167001087 active site 318167001088 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 318167001089 putative active site 1 [active] 318167001090 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 318167001091 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 318167001092 dimer interface [polypeptide binding]; other site 318167001093 active site 318167001094 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 318167001095 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 318167001096 Predicted exporter [General function prediction only]; Region: COG4258 318167001097 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 318167001098 active site 318167001099 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 318167001100 active sites [active] 318167001101 tetramer interface [polypeptide binding]; other site 318167001102 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 318167001103 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 318167001104 Ligand binding site; other site 318167001105 Putative Catalytic site; other site 318167001106 DXD motif; other site 318167001107 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 318167001108 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 318167001109 putative acyl-acceptor binding pocket; other site 318167001110 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 318167001111 active site 2 [active] 318167001112 active site 1 [active] 318167001113 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 318167001114 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 318167001115 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 318167001116 acyl-activating enzyme (AAE) consensus motif; other site 318167001117 acyl-activating enzyme (AAE) consensus motif; other site 318167001118 AMP binding site [chemical binding]; other site 318167001119 active site 318167001120 CoA binding site [chemical binding]; other site 318167001121 Predicted membrane protein [Function unknown]; Region: COG4648 318167001122 acyl carrier protein; Provisional; Region: PRK05350 318167001123 Phosphopantetheine attachment site; Region: PP-binding; cl09936 318167001124 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 318167001125 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 318167001126 putative acyl-acceptor binding pocket; other site 318167001127 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 318167001128 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 318167001129 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 318167001130 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 318167001131 generic binding surface II; other site 318167001132 ssDNA binding site; other site 318167001133 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 318167001134 ATP binding site [chemical binding]; other site 318167001135 putative Mg++ binding site [ion binding]; other site 318167001136 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 318167001137 nucleotide binding region [chemical binding]; other site 318167001138 ATP-binding site [chemical binding]; other site 318167001139 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318167001140 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167001141 active site 318167001142 phosphorylation site [posttranslational modification] 318167001143 intermolecular recognition site; other site 318167001144 dimerization interface [polypeptide binding]; other site 318167001145 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 318167001146 DNA binding residues [nucleotide binding] 318167001147 dimerization interface [polypeptide binding]; other site 318167001148 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 318167001149 Histidine kinase; Region: HisKA_3; pfam07730 318167001150 Tetratricopeptide repeat; Region: TPR_1; pfam00515 318167001151 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 318167001152 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 318167001153 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 318167001154 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 318167001155 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 318167001156 acyl-activating enzyme (AAE) consensus motif; other site 318167001157 putative AMP binding site [chemical binding]; other site 318167001158 putative active site [active] 318167001159 putative CoA binding site [chemical binding]; other site 318167001160 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 318167001161 homotrimer interaction site [polypeptide binding]; other site 318167001162 putative active site [active] 318167001163 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 318167001164 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318167001165 Zn2+ binding site [ion binding]; other site 318167001166 Mg2+ binding site [ion binding]; other site 318167001167 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 318167001168 synthetase active site [active] 318167001169 NTP binding site [chemical binding]; other site 318167001170 metal binding site [ion binding]; metal-binding site 318167001171 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 318167001172 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 318167001173 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 318167001174 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 318167001175 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 318167001176 catalytic site [active] 318167001177 G-X2-G-X-G-K; other site 318167001178 Protein of unknown function (DUF805); Region: DUF805; pfam05656 318167001179 Phosphotransferase enzyme family; Region: APH; pfam01636 318167001180 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 318167001181 active site 318167001182 substrate binding site [chemical binding]; other site 318167001183 ATP binding site [chemical binding]; other site 318167001184 dUMP phosphatase; Provisional; Region: PRK09449 318167001185 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 318167001186 motif II; other site 318167001187 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 318167001188 Transglycosylase; Region: Transgly; pfam00912 318167001189 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 318167001190 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 318167001191 Competence protein A; Region: Competence_A; pfam11104 318167001192 nucleotide binding site [chemical binding]; other site 318167001193 Cell division protein FtsA; Region: FtsA; pfam14450 318167001194 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 318167001195 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 318167001196 Pilus assembly protein, PilO; Region: PilO; pfam04350 318167001197 Pilus assembly protein, PilP; Region: PilP; pfam04351 318167001198 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 318167001199 Secretin and TonB N terminus short domain; Region: STN; smart00965 318167001200 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 318167001201 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 318167001202 shikimate kinase; Reviewed; Region: aroK; PRK00131 318167001203 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 318167001204 ADP binding site [chemical binding]; other site 318167001205 magnesium binding site [ion binding]; other site 318167001206 putative shikimate binding site; other site 318167001207 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 318167001208 active site 318167001209 dimer interface [polypeptide binding]; other site 318167001210 metal binding site [ion binding]; metal-binding site 318167001211 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 318167001212 AAA domain; Region: AAA_22; pfam13401 318167001213 Walker A motif; other site 318167001214 ATP binding site [chemical binding]; other site 318167001215 Walker B motif; other site 318167001216 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 318167001217 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 318167001218 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 318167001219 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 318167001220 substrate binding site [chemical binding]; other site 318167001221 hexamer interface [polypeptide binding]; other site 318167001222 metal binding site [ion binding]; metal-binding site 318167001223 phosphoglycolate phosphatase; Provisional; Region: PRK13222 318167001224 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 318167001225 motif II; other site 318167001226 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 318167001227 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 318167001228 active site 318167001229 HIGH motif; other site 318167001230 dimer interface [polypeptide binding]; other site 318167001231 KMSKS motif; other site 318167001232 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 318167001233 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167001234 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 318167001235 dimerization interface [polypeptide binding]; other site 318167001236 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 318167001237 EamA-like transporter family; Region: EamA; pfam00892 318167001238 BON domain; Region: BON; cl02771 318167001239 BON domain; Region: BON; pfam04972 318167001240 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 318167001241 dimer interface [polypeptide binding]; other site 318167001242 active site 318167001243 hypothetical protein; Reviewed; Region: PRK12497 318167001244 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 318167001245 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 318167001246 putative ligand binding site [chemical binding]; other site 318167001247 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 318167001248 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 318167001249 putative SAM binding site [chemical binding]; other site 318167001250 putative homodimer interface [polypeptide binding]; other site 318167001251 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318167001252 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 318167001253 N-terminal plug; other site 318167001254 ligand-binding site [chemical binding]; other site 318167001255 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318167001256 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 318167001257 N-terminal plug; other site 318167001258 ligand-binding site [chemical binding]; other site 318167001259 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 318167001260 Uncharacterized conserved protein [Function unknown]; Region: COG2966 318167001261 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 318167001262 Uncharacterized conserved protein [Function unknown]; Region: COG3610 318167001263 MAPEG family; Region: MAPEG; cl09190 318167001264 hypothetical protein; Provisional; Region: PRK01254 318167001265 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 318167001266 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 318167001267 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318167001268 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318167001269 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318167001270 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 318167001271 putative amphipathic alpha helix; other site 318167001272 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 318167001273 Uncharacterized conserved protein [Function unknown]; Region: COG0397 318167001274 hypothetical protein; Validated; Region: PRK00029 318167001275 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 318167001276 serine/threonine protein kinase; Provisional; Region: PRK11768 318167001277 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 318167001278 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 318167001279 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 318167001280 catalytic residues [active] 318167001281 hinge region; other site 318167001282 alpha helical domain; other site 318167001283 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 318167001284 Protein of unknown function (DUF904); Region: DUF904; pfam06005 318167001285 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 318167001286 homotrimer interaction site [polypeptide binding]; other site 318167001287 putative active site [active] 318167001288 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 318167001289 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 318167001290 homodimer interface [polypeptide binding]; other site 318167001291 substrate-cofactor binding pocket; other site 318167001292 catalytic residue [active] 318167001293 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 318167001294 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 318167001295 PAS domain S-box; Region: sensory_box; TIGR00229 318167001296 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 318167001297 heme pocket [chemical binding]; other site 318167001298 putative active site [active] 318167001299 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 318167001300 PAS domain; Region: PAS_9; pfam13426 318167001301 putative active site [active] 318167001302 heme pocket [chemical binding]; other site 318167001303 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167001304 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167001305 metal binding site [ion binding]; metal-binding site 318167001306 active site 318167001307 I-site; other site 318167001308 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 318167001309 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 318167001310 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 318167001311 putative acyl-acceptor binding pocket; other site 318167001312 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 318167001313 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 318167001314 putative acyl-acceptor binding pocket; other site 318167001315 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 318167001316 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 318167001317 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 318167001318 Walker A motif; other site 318167001319 ATP binding site [chemical binding]; other site 318167001320 Walker B motif; other site 318167001321 arginine finger; other site 318167001322 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 318167001323 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 318167001324 Domain of unknown function DUF21; Region: DUF21; pfam01595 318167001325 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 318167001326 Transporter associated domain; Region: CorC_HlyC; smart01091 318167001327 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167001328 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 318167001329 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 318167001330 putative dimerization interface [polypeptide binding]; other site 318167001331 ketol-acid reductoisomerase; Validated; Region: PRK05225 318167001332 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 318167001333 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 318167001334 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 318167001335 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 318167001336 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 318167001337 PYR/PP interface [polypeptide binding]; other site 318167001338 dimer interface [polypeptide binding]; other site 318167001339 TPP binding site [chemical binding]; other site 318167001340 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 318167001341 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 318167001342 TPP-binding site [chemical binding]; other site 318167001343 dimer interface [polypeptide binding]; other site 318167001344 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 318167001345 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 318167001346 threonine dehydratase; Reviewed; Region: PRK09224 318167001347 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 318167001348 tetramer interface [polypeptide binding]; other site 318167001349 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167001350 catalytic residue [active] 318167001351 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 318167001352 putative Ile/Val binding site [chemical binding]; other site 318167001353 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 318167001354 putative Ile/Val binding site [chemical binding]; other site 318167001355 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 318167001356 homodimer interface [polypeptide binding]; other site 318167001357 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167001358 catalytic residue [active] 318167001359 Membrane fusogenic activity; Region: BMFP; pfam04380 318167001360 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 318167001361 Part of AAA domain; Region: AAA_19; pfam13245 318167001362 Family description; Region: UvrD_C_2; pfam13538 318167001363 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 318167001364 GAF domain; Region: GAF; pfam01590 318167001365 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 318167001366 GAF domain; Region: GAF; pfam01590 318167001367 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167001368 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167001369 metal binding site [ion binding]; metal-binding site 318167001370 active site 318167001371 I-site; other site 318167001372 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 318167001373 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 318167001374 dimerization interface [polypeptide binding]; other site 318167001375 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167001376 metal binding site [ion binding]; metal-binding site 318167001377 active site 318167001378 I-site; other site 318167001379 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 318167001380 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 318167001381 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 318167001382 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167001383 ligand binding site [chemical binding]; other site 318167001384 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 318167001385 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 318167001386 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 318167001387 HlyD family secretion protein; Region: HlyD_3; pfam13437 318167001388 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 318167001389 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 318167001390 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 318167001391 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 318167001392 Walker A/P-loop; other site 318167001393 ATP binding site [chemical binding]; other site 318167001394 Q-loop/lid; other site 318167001395 ABC transporter signature motif; other site 318167001396 Walker B; other site 318167001397 D-loop; other site 318167001398 H-loop/switch region; other site 318167001399 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001400 Ca2+ binding site [ion binding]; other site 318167001401 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001402 Ca2+ binding site [ion binding]; other site 318167001403 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001404 Ca2+ binding site [ion binding]; other site 318167001405 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001406 Ca2+ binding site [ion binding]; other site 318167001407 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001408 Ca2+ binding site [ion binding]; other site 318167001409 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001410 Ca2+ binding site [ion binding]; other site 318167001411 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001412 Ca2+ binding site [ion binding]; other site 318167001413 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001414 Ca2+ binding site [ion binding]; other site 318167001415 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001416 Ca2+ binding site [ion binding]; other site 318167001417 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001418 Ca2+ binding site [ion binding]; other site 318167001419 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001420 Ca2+ binding site [ion binding]; other site 318167001421 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001422 Ca2+ binding site [ion binding]; other site 318167001423 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001424 Ca2+ binding site [ion binding]; other site 318167001425 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001426 Ca2+ binding site [ion binding]; other site 318167001427 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001428 Ca2+ binding site [ion binding]; other site 318167001429 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001430 Ca2+ binding site [ion binding]; other site 318167001431 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001432 Ca2+ binding site [ion binding]; other site 318167001433 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001434 Ca2+ binding site [ion binding]; other site 318167001435 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001436 Ca2+ binding site [ion binding]; other site 318167001437 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001438 Ca2+ binding site [ion binding]; other site 318167001439 Cadherin repeat-like domain; Region: CA_like; cl15786 318167001440 Ca2+ binding site [ion binding]; other site 318167001441 VCBS repeat; Region: VCBS_repeat; TIGR01965 318167001442 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 318167001443 metal ion-dependent adhesion site (MIDAS); other site 318167001444 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 318167001445 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 318167001446 HemY protein N-terminus; Region: HemY_N; pfam07219 318167001447 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 318167001448 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 318167001449 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 318167001450 active site 318167001451 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 318167001452 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 318167001453 domain interfaces; other site 318167001454 active site 318167001455 adenylate cyclase; Provisional; Region: cyaA; PRK09450 318167001456 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 318167001457 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 318167001458 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 318167001459 putative iron binding site [ion binding]; other site 318167001460 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 318167001461 diaminopimelate decarboxylase; Region: lysA; TIGR01048 318167001462 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 318167001463 active site 318167001464 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318167001465 substrate binding site [chemical binding]; other site 318167001466 catalytic residues [active] 318167001467 dimer interface [polypeptide binding]; other site 318167001468 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 318167001469 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 318167001470 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 318167001471 Protein of unknown function, DUF484; Region: DUF484; cl17449 318167001472 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 318167001473 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 318167001474 active site 318167001475 Int/Topo IB signature motif; other site 318167001476 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 318167001477 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 318167001478 motif II; other site 318167001479 Divergent AAA domain; Region: AAA_4; pfam04326 318167001480 Hemerythrin-like domain; Region: Hr-like; cd12108 318167001481 Fe binding site [ion binding]; other site 318167001482 mutatrotase, YjhT family; Region: muta_rot_YjhT; TIGR03547 318167001483 Kelch motif; Region: Kelch_1; pfam01344 318167001484 Part of AAA domain; Region: AAA_19; pfam13245 318167001485 Family description; Region: UvrD_C_2; pfam13538 318167001486 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 318167001487 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 318167001488 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 318167001489 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 318167001490 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 318167001491 FMN binding site [chemical binding]; other site 318167001492 active site 318167001493 catalytic residues [active] 318167001494 substrate binding site [chemical binding]; other site 318167001495 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 318167001496 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 318167001497 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13554 318167001498 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 318167001499 distal heme binding site [chemical binding]; other site 318167001500 proximal heme binding site [chemical binding]; other site 318167001501 dimer interface [polypeptide binding]; other site 318167001502 Iron-sulfur protein interface; other site 318167001503 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 318167001504 L-aspartate oxidase; Provisional; Region: PRK06175 318167001505 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 318167001506 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 318167001507 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 318167001508 transcription termination factor Rho; Provisional; Region: rho; PRK09376 318167001509 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 318167001510 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 318167001511 RNA binding site [nucleotide binding]; other site 318167001512 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 318167001513 multimer interface [polypeptide binding]; other site 318167001514 Walker A motif; other site 318167001515 ATP binding site [chemical binding]; other site 318167001516 Walker B motif; other site 318167001517 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 318167001518 catalytic residues [active] 318167001519 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 318167001520 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 318167001521 ATP binding site [chemical binding]; other site 318167001522 Mg++ binding site [ion binding]; other site 318167001523 motif III; other site 318167001524 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 318167001525 nucleotide binding region [chemical binding]; other site 318167001526 ATP-binding site [chemical binding]; other site 318167001527 exopolyphosphatase; Region: exo_poly_only; TIGR03706 318167001528 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 318167001529 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 318167001530 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 318167001531 catalytic residues [active] 318167001532 Integrase core domain; Region: rve; pfam00665 318167001533 Integrase core domain; Region: rve_3; pfam13683 318167001534 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 318167001535 dimer interface [polypeptide binding]; other site 318167001536 allosteric magnesium binding site [ion binding]; other site 318167001537 active site 318167001538 aspartate-rich active site metal binding site; other site 318167001539 Schiff base residues; other site 318167001540 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 318167001541 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 318167001542 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167001543 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167001544 metal binding site [ion binding]; metal-binding site 318167001545 active site 318167001546 I-site; other site 318167001547 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 318167001548 active site 318167001549 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 318167001550 sec-independent translocase; Provisional; Region: tatB; PRK00404 318167001551 sec-independent translocase; Provisional; Region: PRK01770 318167001552 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 318167001553 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 318167001554 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 318167001555 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 318167001556 SCP-2 sterol transfer family; Region: SCP2; pfam02036 318167001557 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 318167001558 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 318167001559 S-adenosylmethionine binding site [chemical binding]; other site 318167001560 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 318167001561 putative active site [active] 318167001562 putative metal binding site [ion binding]; other site 318167001563 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 318167001564 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 318167001565 active site 318167001566 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 318167001567 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 318167001568 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; pfam04353 318167001569 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 318167001570 substrate binding site [chemical binding]; other site 318167001571 active site 318167001572 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318167001573 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 318167001574 dimer interface [polypeptide binding]; other site 318167001575 phosphorylation site [posttranslational modification] 318167001576 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 318167001577 ATP binding site [chemical binding]; other site 318167001578 Mg2+ binding site [ion binding]; other site 318167001579 G-X-G motif; other site 318167001580 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318167001581 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167001582 active site 318167001583 phosphorylation site [posttranslational modification] 318167001584 intermolecular recognition site; other site 318167001585 dimerization interface [polypeptide binding]; other site 318167001586 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 318167001587 DNA binding site [nucleotide binding] 318167001588 Spondin_N; Region: Spond_N; pfam06468 318167001589 Spondin_N; Region: Spond_N; pfam06468 318167001590 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 318167001591 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 318167001592 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 318167001593 Protein of unknown function (DUF3353); Region: DUF3353; pfam11833 318167001594 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 318167001595 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 318167001596 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 318167001597 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 318167001598 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 318167001599 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 318167001600 purine monophosphate binding site [chemical binding]; other site 318167001601 dimer interface [polypeptide binding]; other site 318167001602 putative catalytic residues [active] 318167001603 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 318167001604 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 318167001605 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 318167001606 DNA binding residues [nucleotide binding] 318167001607 dimer interface [polypeptide binding]; other site 318167001608 metal binding site [ion binding]; metal-binding site 318167001609 Predicted permease; Region: DUF318; cl17795 318167001610 Predicted permeases [General function prediction only]; Region: COG0701 318167001611 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167001612 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167001613 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 318167001614 putative effector binding pocket; other site 318167001615 dimerization interface [polypeptide binding]; other site 318167001616 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 318167001617 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 318167001618 HlyD family secretion protein; Region: HlyD_3; pfam13437 318167001619 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 318167001620 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 318167001621 putative substrate translocation pore; other site 318167001622 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 318167001623 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167001624 Coenzyme A binding pocket [chemical binding]; other site 318167001625 Uncharacterized conserved protein [Function unknown]; Region: COG1359 318167001626 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 318167001627 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 318167001628 eyelet of channel; other site 318167001629 trimer interface [polypeptide binding]; other site 318167001630 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 318167001631 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 318167001632 putative ATP binding site [chemical binding]; other site 318167001633 putative substrate interface [chemical binding]; other site 318167001634 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 318167001635 dimer interface [polypeptide binding]; other site 318167001636 phosphorylation site [posttranslational modification] 318167001637 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 318167001638 ATP binding site [chemical binding]; other site 318167001639 Mg2+ binding site [ion binding]; other site 318167001640 G-X-G motif; other site 318167001641 Superinfection exclusion protein B; Region: SieB; pfam14163 318167001642 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 318167001643 Activator of aromatic catabolism; Region: XylR_N; pfam06505 318167001644 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 318167001645 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 318167001646 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 318167001647 Walker A motif; other site 318167001648 ATP binding site [chemical binding]; other site 318167001649 Walker B motif; other site 318167001650 arginine finger; other site 318167001651 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318167001652 Porin subfamily; Region: Porin_2; pfam02530 318167001653 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 318167001654 Predicted oxidoreductase [General function prediction only]; Region: COG3573 318167001655 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 318167001656 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 318167001657 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 318167001658 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 318167001659 putative active site [active] 318167001660 catalytic triad [active] 318167001661 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 318167001662 PA/protease or protease-like domain interface [polypeptide binding]; other site 318167001663 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 318167001664 catalytic residues [active] 318167001665 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 318167001666 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 318167001667 Ca2+ binding site [ion binding]; other site 318167001668 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 318167001669 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 318167001670 putative DNA binding site [nucleotide binding]; other site 318167001671 putative Zn2+ binding site [ion binding]; other site 318167001672 AsnC family; Region: AsnC_trans_reg; pfam01037 318167001673 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 318167001674 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 318167001675 active site 318167001676 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 318167001677 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 318167001678 putative ligand binding site [chemical binding]; other site 318167001679 putative NAD binding site [chemical binding]; other site 318167001680 catalytic site [active] 318167001681 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 318167001682 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 318167001683 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318167001684 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 318167001685 peroxiredoxin; Region: AhpC; TIGR03137 318167001686 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 318167001687 dimer interface [polypeptide binding]; other site 318167001688 decamer (pentamer of dimers) interface [polypeptide binding]; other site 318167001689 catalytic triad [active] 318167001690 peroxidatic and resolving cysteines [active] 318167001691 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 318167001692 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 318167001693 catalytic residue [active] 318167001694 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 318167001695 catalytic residues [active] 318167001696 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 318167001697 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167001698 HAMP domain; Region: HAMP; pfam00672 318167001699 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167001700 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167001701 dimer interface [polypeptide binding]; other site 318167001702 putative CheW interface [polypeptide binding]; other site 318167001703 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 318167001704 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 318167001705 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 318167001706 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 318167001707 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 318167001708 AMP binding site [chemical binding]; other site 318167001709 metal binding site [ion binding]; metal-binding site 318167001710 active site 318167001711 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 318167001712 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 318167001713 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 318167001714 two-component response regulator; Provisional; Region: PRK11173 318167001715 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167001716 active site 318167001717 phosphorylation site [posttranslational modification] 318167001718 intermolecular recognition site; other site 318167001719 dimerization interface [polypeptide binding]; other site 318167001720 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 318167001721 DNA binding site [nucleotide binding] 318167001722 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 318167001723 aspartate kinase III; Validated; Region: PRK09084 318167001724 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 318167001725 nucleotide binding site [chemical binding]; other site 318167001726 substrate binding site [chemical binding]; other site 318167001727 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 318167001728 dimer interface [polypeptide binding]; other site 318167001729 allosteric regulatory binding pocket; other site 318167001730 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 318167001731 dimer interface [polypeptide binding]; other site 318167001732 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 318167001733 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 318167001734 active site 318167001735 Zn binding site [ion binding]; other site 318167001736 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 318167001737 Peptidase family M50; Region: Peptidase_M50; pfam02163 318167001738 active site 318167001739 putative substrate binding region [chemical binding]; other site 318167001740 protein structure with unknown function; Region: DUF4144; pfam13642 318167001741 Protein of unknown function (DUF342); Region: DUF342; pfam03961 318167001742 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 318167001743 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 318167001744 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 318167001745 S-adenosylmethionine binding site [chemical binding]; other site 318167001746 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 318167001747 Alkaline phosphatase homologues; Region: alkPPc; smart00098 318167001748 active site 318167001749 dimer interface [polypeptide binding]; other site 318167001750 glutathione synthetase; Provisional; Region: PRK05246 318167001751 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 318167001752 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 318167001753 RNA methyltransferase, RsmE family; Region: TIGR00046 318167001754 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 318167001755 DNA-specific endonuclease I; Provisional; Region: PRK15137 318167001756 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 318167001757 hypothetical protein; Provisional; Region: PRK04860 318167001758 SprT homologues; Region: SprT; cl01182 318167001759 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 318167001760 putative substrate binding pocket [chemical binding]; other site 318167001761 AC domain interface; other site 318167001762 catalytic triad [active] 318167001763 AB domain interface; other site 318167001764 interchain disulfide; other site 318167001765 LysR family transcriptional regulator; Provisional; Region: PRK14997 318167001766 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167001767 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 318167001768 putative effector binding pocket; other site 318167001769 dimerization interface [polypeptide binding]; other site 318167001770 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 318167001771 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 318167001772 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 318167001773 ATP-grasp domain; Region: ATP-grasp_4; cl17255 318167001774 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 318167001775 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 318167001776 carboxyltransferase (CT) interaction site; other site 318167001777 biotinylation site [posttranslational modification]; other site 318167001778 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318167001779 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 318167001780 substrate binding pocket [chemical binding]; other site 318167001781 membrane-bound complex binding site; other site 318167001782 hinge residues; other site 318167001783 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167001784 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167001785 metal binding site [ion binding]; metal-binding site 318167001786 active site 318167001787 I-site; other site 318167001788 elongation factor G; Reviewed; Region: PRK00007 318167001789 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 318167001790 G1 box; other site 318167001791 putative GEF interaction site [polypeptide binding]; other site 318167001792 GTP/Mg2+ binding site [chemical binding]; other site 318167001793 Switch I region; other site 318167001794 G2 box; other site 318167001795 G3 box; other site 318167001796 Switch II region; other site 318167001797 G4 box; other site 318167001798 G5 box; other site 318167001799 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 318167001800 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 318167001801 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 318167001802 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167001803 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167001804 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 318167001805 putative dimerization interface [polypeptide binding]; other site 318167001806 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 318167001807 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 318167001808 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 318167001809 [4Fe-4S] binding site [ion binding]; other site 318167001810 molybdopterin cofactor binding site; other site 318167001811 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 318167001812 molybdopterin cofactor binding site; other site 318167001813 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 318167001814 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 318167001815 FtsX-like permease family; Region: FtsX; pfam02687 318167001816 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 318167001817 FtsX-like permease family; Region: FtsX; pfam02687 318167001818 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 318167001819 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 318167001820 Walker A/P-loop; other site 318167001821 ATP binding site [chemical binding]; other site 318167001822 Q-loop/lid; other site 318167001823 ABC transporter signature motif; other site 318167001824 Walker B; other site 318167001825 D-loop; other site 318167001826 H-loop/switch region; other site 318167001827 putative global regulator; Reviewed; Region: PRK09559 318167001828 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 318167001829 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 318167001830 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 318167001831 ligand binding site [chemical binding]; other site 318167001832 NAD binding site [chemical binding]; other site 318167001833 tetramer interface [polypeptide binding]; other site 318167001834 catalytic site [active] 318167001835 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 318167001836 L-serine binding site [chemical binding]; other site 318167001837 ACT domain interface; other site 318167001838 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 318167001839 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318167001840 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 318167001841 DNA binding residues [nucleotide binding] 318167001842 dimerization interface [polypeptide binding]; other site 318167001843 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 318167001844 CoenzymeA binding site [chemical binding]; other site 318167001845 subunit interaction site [polypeptide binding]; other site 318167001846 PHB binding site; other site 318167001847 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 318167001848 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 318167001849 tetramer interface [polypeptide binding]; other site 318167001850 heme binding pocket [chemical binding]; other site 318167001851 NADPH binding site [chemical binding]; other site 318167001852 Uncharacterized conserved protein [Function unknown]; Region: COG3025 318167001853 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 318167001854 putative active site [active] 318167001855 putative metal binding residues [ion binding]; other site 318167001856 signature motif; other site 318167001857 putative triphosphate binding site [ion binding]; other site 318167001858 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 318167001859 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 318167001860 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 318167001861 Bacterial SH3 domain homologues; Region: SH3b; smart00287 318167001862 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 318167001863 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 318167001864 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 318167001865 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 318167001866 Glutamate binding site [chemical binding]; other site 318167001867 NAD binding site [chemical binding]; other site 318167001868 catalytic residues [active] 318167001869 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 318167001870 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 318167001871 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 318167001872 RNA binding surface [nucleotide binding]; other site 318167001873 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 318167001874 probable active site [active] 318167001875 Peptidase S46; Region: Peptidase_S46; pfam10459 318167001876 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 318167001877 aromatic amino acid transport protein; Region: araaP; TIGR00837 318167001878 Predicted membrane protein [Function unknown]; Region: COG2119 318167001879 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 318167001880 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 318167001881 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 318167001882 Transcriptional regulators [Transcription]; Region: MarR; COG1846 318167001883 MarR family; Region: MarR; pfam01047 318167001884 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 318167001885 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 318167001886 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 318167001887 Chromate transporter; Region: Chromate_transp; pfam02417 318167001888 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 318167001889 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 318167001890 dimerization interface [polypeptide binding]; other site 318167001891 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167001892 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167001893 dimer interface [polypeptide binding]; other site 318167001894 putative CheW interface [polypeptide binding]; other site 318167001895 This domain is found in peptide chain release factors; Region: PCRF; smart00937 318167001896 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 318167001897 RF-1 domain; Region: RF-1; pfam00472 318167001898 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 318167001899 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 318167001900 dimer interface [polypeptide binding]; other site 318167001901 putative anticodon binding site; other site 318167001902 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 318167001903 motif 1; other site 318167001904 active site 318167001905 motif 2; other site 318167001906 motif 3; other site 318167001907 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 318167001908 CoenzymeA binding site [chemical binding]; other site 318167001909 subunit interaction site [polypeptide binding]; other site 318167001910 PHB binding site; other site 318167001911 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 318167001912 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167001913 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 318167001914 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 318167001915 active site residue [active] 318167001916 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 318167001917 metal binding site 2 [ion binding]; metal-binding site 318167001918 putative DNA binding helix; other site 318167001919 metal binding site 1 [ion binding]; metal-binding site 318167001920 dimer interface [polypeptide binding]; other site 318167001921 structural Zn2+ binding site [ion binding]; other site 318167001922 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 318167001923 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 318167001924 FOG: WD40 repeat [General function prediction only]; Region: COG2319 318167001925 structural tetrad; other site 318167001926 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 318167001927 active site 318167001928 substrate binding pocket [chemical binding]; other site 318167001929 dimer interface [polypeptide binding]; other site 318167001930 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 318167001931 PAS fold; Region: PAS_4; pfam08448 318167001932 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 318167001933 putative active site [active] 318167001934 heme pocket [chemical binding]; other site 318167001935 PAS domain S-box; Region: sensory_box; TIGR00229 318167001936 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 318167001937 putative active site [active] 318167001938 heme pocket [chemical binding]; other site 318167001939 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 318167001940 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 318167001941 putative active site [active] 318167001942 heme pocket [chemical binding]; other site 318167001943 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 318167001944 putative active site [active] 318167001945 heme pocket [chemical binding]; other site 318167001946 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167001947 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167001948 metal binding site [ion binding]; metal-binding site 318167001949 active site 318167001950 I-site; other site 318167001951 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 318167001952 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 318167001953 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 318167001954 Active site serine [active] 318167001955 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167001956 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 318167001957 ligand binding site [chemical binding]; other site 318167001958 Predicted membrane protein [Function unknown]; Region: COG2860 318167001959 UPF0126 domain; Region: UPF0126; pfam03458 318167001960 UPF0126 domain; Region: UPF0126; pfam03458 318167001961 Mediator complex subunit 15; Region: Med15_fungi; pfam05397 318167001962 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318167001963 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 318167001964 DNA binding residues [nucleotide binding] 318167001965 dimerization interface [polypeptide binding]; other site 318167001966 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 318167001967 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 318167001968 RNA binding surface [nucleotide binding]; other site 318167001969 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 318167001970 probable active site [active] 318167001971 Protein of unknown function DUF72; Region: DUF72; cl00777 318167001972 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 318167001973 Transglycosylase; Region: Transgly; cl17702 318167001974 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 318167001975 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 318167001976 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 318167001977 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 318167001978 DEAD-like helicases superfamily; Region: DEXDc; smart00487 318167001979 ATP binding site [chemical binding]; other site 318167001980 putative Mg++ binding site [ion binding]; other site 318167001981 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 318167001982 nucleotide binding region [chemical binding]; other site 318167001983 ATP-binding site [chemical binding]; other site 318167001984 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 318167001985 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 318167001986 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167001987 putative metal binding site [ion binding]; other site 318167001988 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 318167001989 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 318167001990 N-terminal plug; other site 318167001991 ligand-binding site [chemical binding]; other site 318167001992 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 318167001993 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 318167001994 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 318167001995 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 318167001996 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 318167001997 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 318167001998 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167001999 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167002000 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 318167002001 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 318167002002 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 318167002003 Cl binding site [ion binding]; other site 318167002004 oligomer interface [polypeptide binding]; other site 318167002005 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 318167002006 transcriptional regulator NarL; Provisional; Region: PRK10651 318167002007 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167002008 active site 318167002009 phosphorylation site [posttranslational modification] 318167002010 intermolecular recognition site; other site 318167002011 dimerization interface [polypeptide binding]; other site 318167002012 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 318167002013 DNA binding residues [nucleotide binding] 318167002014 dimerization interface [polypeptide binding]; other site 318167002015 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 318167002016 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 318167002017 HAMP domain; Region: HAMP; pfam00672 318167002018 Histidine kinase; Region: HisKA_3; pfam07730 318167002019 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 318167002020 ATP binding site [chemical binding]; other site 318167002021 Mg2+ binding site [ion binding]; other site 318167002022 G-X-G motif; other site 318167002023 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 318167002024 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 318167002025 Nitrogen regulatory protein P-II; Region: P-II; smart00938 318167002026 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 318167002027 TPR repeat; Region: TPR_11; pfam13414 318167002028 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 318167002029 binding surface 318167002030 TPR motif; other site 318167002031 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 318167002032 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 318167002033 binding surface 318167002034 TPR motif; other site 318167002035 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318167002036 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 318167002037 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 318167002038 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 318167002039 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 318167002040 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318167002041 Walker A/P-loop; other site 318167002042 ATP binding site [chemical binding]; other site 318167002043 Q-loop/lid; other site 318167002044 ABC transporter signature motif; other site 318167002045 Walker B; other site 318167002046 D-loop; other site 318167002047 H-loop/switch region; other site 318167002048 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 318167002049 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 318167002050 active site 318167002051 FMN binding site [chemical binding]; other site 318167002052 substrate binding site [chemical binding]; other site 318167002053 3Fe-4S cluster binding site [ion binding]; other site 318167002054 ferredoxin-NADP reductase; Provisional; Region: PRK10926 318167002055 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 318167002056 FAD binding pocket [chemical binding]; other site 318167002057 FAD binding motif [chemical binding]; other site 318167002058 phosphate binding motif [ion binding]; other site 318167002059 beta-alpha-beta structure motif; other site 318167002060 NAD binding pocket [chemical binding]; other site 318167002061 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 318167002062 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 318167002063 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 318167002064 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 318167002065 dimer interface [polypeptide binding]; other site 318167002066 conserved gate region; other site 318167002067 putative PBP binding loops; other site 318167002068 ABC-ATPase subunit interface; other site 318167002069 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 318167002070 dimer interface [polypeptide binding]; other site 318167002071 conserved gate region; other site 318167002072 putative PBP binding loops; other site 318167002073 ABC-ATPase subunit interface; other site 318167002074 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 318167002075 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 318167002076 Walker A/P-loop; other site 318167002077 ATP binding site [chemical binding]; other site 318167002078 Q-loop/lid; other site 318167002079 ABC transporter signature motif; other site 318167002080 Walker B; other site 318167002081 D-loop; other site 318167002082 H-loop/switch region; other site 318167002083 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 318167002084 arginine repressor; Provisional; Region: PRK05066 318167002085 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 318167002086 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 318167002087 META domain; Region: META; pfam03724 318167002088 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 318167002089 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 318167002090 Coenzyme A binding pocket [chemical binding]; other site 318167002091 S-adenosylmethionine synthetase; Validated; Region: PRK05250 318167002092 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 318167002093 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 318167002094 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 318167002095 transketolase; Reviewed; Region: PRK12753 318167002096 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 318167002097 TPP-binding site [chemical binding]; other site 318167002098 dimer interface [polypeptide binding]; other site 318167002099 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 318167002100 PYR/PP interface [polypeptide binding]; other site 318167002101 dimer interface [polypeptide binding]; other site 318167002102 TPP binding site [chemical binding]; other site 318167002103 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 318167002104 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 318167002105 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 318167002106 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 318167002107 Phosphoglycerate kinase; Region: PGK; pfam00162 318167002108 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 318167002109 substrate binding site [chemical binding]; other site 318167002110 hinge regions; other site 318167002111 ADP binding site [chemical binding]; other site 318167002112 catalytic site [active] 318167002113 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 318167002114 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 318167002115 intersubunit interface [polypeptide binding]; other site 318167002116 active site 318167002117 zinc binding site [ion binding]; other site 318167002118 Na+ binding site [ion binding]; other site 318167002119 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 318167002120 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 318167002121 Protein of unknown function, DUF481; Region: DUF481; pfam04338 318167002122 PAS domain; Region: PAS_9; pfam13426 318167002123 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167002124 I-site; other site 318167002125 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 318167002126 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 318167002127 FeS/SAM binding site; other site 318167002128 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318167002129 Protein export membrane protein; Region: SecD_SecF; cl14618 318167002130 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167002131 HlyD family secretion protein; Region: HlyD_3; pfam13437 318167002132 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 318167002133 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 318167002134 ATP binding site [chemical binding]; other site 318167002135 putative Mg++ binding site [ion binding]; other site 318167002136 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 318167002137 nucleotide binding region [chemical binding]; other site 318167002138 ATP-binding site [chemical binding]; other site 318167002139 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 318167002140 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 318167002141 S-adenosylmethionine binding site [chemical binding]; other site 318167002142 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 318167002143 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 318167002144 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 318167002145 active site 318167002146 Int/Topo IB signature motif; other site 318167002147 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 318167002148 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 318167002149 dimerization domain [polypeptide binding]; other site 318167002150 dimer interface [polypeptide binding]; other site 318167002151 catalytic residues [active] 318167002152 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 318167002153 DHH family; Region: DHH; pfam01368 318167002154 DHHA1 domain; Region: DHHA1; pfam02272 318167002155 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 318167002156 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 318167002157 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 318167002158 RNA binding surface [nucleotide binding]; other site 318167002159 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 318167002160 active site 318167002161 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 318167002162 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 318167002163 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 318167002164 Clp amino terminal domain; Region: Clp_N; pfam02861 318167002165 Clp amino terminal domain; Region: Clp_N; pfam02861 318167002166 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 318167002167 Walker A motif; other site 318167002168 ATP binding site [chemical binding]; other site 318167002169 Walker B motif; other site 318167002170 arginine finger; other site 318167002171 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 318167002172 Walker A motif; other site 318167002173 ATP binding site [chemical binding]; other site 318167002174 Walker B motif; other site 318167002175 arginine finger; other site 318167002176 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 318167002177 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 318167002178 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 318167002179 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 318167002180 DDE superfamily endonuclease; Region: DDE_3; pfam13358 318167002181 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 318167002182 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 318167002183 Homeodomain-like domain; Region: HTH_23; pfam13384 318167002184 Winged helix-turn helix; Region: HTH_33; pfam13592 318167002185 DDE superfamily endonuclease; Region: DDE_3; pfam13358 318167002186 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 318167002187 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 318167002188 Homeodomain-like domain; Region: HTH_23; pfam13384 318167002189 Winged helix-turn helix; Region: HTH_33; pfam13592 318167002190 Protein of unknown function, DUF607; Region: DUF607; pfam04678 318167002191 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 318167002192 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 318167002193 eyelet of channel; other site 318167002194 trimer interface [polypeptide binding]; other site 318167002195 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 318167002196 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 318167002197 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 318167002198 L-aspartate oxidase; Provisional; Region: PRK06175 318167002199 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 318167002200 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13554 318167002201 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 318167002202 Iron-sulfur protein interface; other site 318167002203 proximal heme binding site [chemical binding]; other site 318167002204 distal heme binding site [chemical binding]; other site 318167002205 dimer interface [polypeptide binding]; other site 318167002206 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 318167002207 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 318167002208 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 318167002209 Aspartase; Region: Aspartase; cd01357 318167002210 active sites [active] 318167002211 tetramer interface [polypeptide binding]; other site 318167002212 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 318167002213 active site 318167002214 homotetramer interface [polypeptide binding]; other site 318167002215 homodimer interface [polypeptide binding]; other site 318167002216 Transposase; Region: HTH_Tnp_1; pfam01527 318167002217 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 318167002218 putative transposase OrfB; Reviewed; Region: PHA02517 318167002219 HTH-like domain; Region: HTH_21; pfam13276 318167002220 Integrase core domain; Region: rve; pfam00665 318167002221 Integrase core domain; Region: rve_3; pfam13683 318167002222 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 318167002223 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 318167002224 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 318167002225 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 318167002226 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 318167002227 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 318167002228 YheO-like PAS domain; Region: PAS_6; pfam08348 318167002229 HTH domain; Region: HTH_22; pfam13309 318167002230 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 318167002231 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 318167002232 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167002233 Coenzyme A binding pocket [chemical binding]; other site 318167002234 lipoyl synthase; Provisional; Region: PRK05481 318167002235 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 318167002236 FeS/SAM binding site; other site 318167002237 lipoate-protein ligase B; Provisional; Region: PRK14342 318167002238 hypothetical protein; Provisional; Region: PRK04998 318167002239 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 318167002240 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 318167002241 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 318167002242 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 318167002243 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 318167002244 Sporulation related domain; Region: SPOR; pfam05036 318167002245 Transglycosylase SLT domain; Region: SLT_2; pfam13406 318167002246 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 318167002247 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318167002248 catalytic residue [active] 318167002249 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 318167002250 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 318167002251 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 318167002252 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 318167002253 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 318167002254 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 318167002255 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 318167002256 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 318167002257 active site 318167002258 (T/H)XGH motif; other site 318167002259 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 318167002260 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 318167002261 Lipopolysaccharide-assembly; Region: LptE; cl01125 318167002262 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 318167002263 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 318167002264 HIGH motif; other site 318167002265 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 318167002266 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318167002267 active site 318167002268 KMSKS motif; other site 318167002269 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 318167002270 tRNA binding surface [nucleotide binding]; other site 318167002271 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 318167002272 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 318167002273 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 318167002274 putative active site [active] 318167002275 catalytic triad [active] 318167002276 putative dimer interface [polypeptide binding]; other site 318167002277 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 318167002278 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 318167002279 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 318167002280 Transporter associated domain; Region: CorC_HlyC; smart01091 318167002281 metal-binding heat shock protein; Provisional; Region: PRK00016 318167002282 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 318167002283 PhoH-like protein; Region: PhoH; pfam02562 318167002284 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 318167002285 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 318167002286 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 318167002287 FeS/SAM binding site; other site 318167002288 TRAM domain; Region: TRAM; pfam01938 318167002289 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 318167002290 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK08849 318167002291 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 318167002292 putative active site [active] 318167002293 catalytic residue [active] 318167002294 GTP-binding protein YchF; Reviewed; Region: PRK09601 318167002295 YchF GTPase; Region: YchF; cd01900 318167002296 G1 box; other site 318167002297 GTP/Mg2+ binding site [chemical binding]; other site 318167002298 Switch I region; other site 318167002299 G2 box; other site 318167002300 Switch II region; other site 318167002301 G3 box; other site 318167002302 G4 box; other site 318167002303 G5 box; other site 318167002304 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 318167002305 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 318167002306 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 318167002307 active site 318167002308 nucleophile elbow; other site 318167002309 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 318167002310 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 318167002311 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318167002312 active site 318167002313 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 318167002314 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 318167002315 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 318167002316 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 318167002317 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 318167002318 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 318167002319 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 318167002320 tRNA; other site 318167002321 putative tRNA binding site [nucleotide binding]; other site 318167002322 putative NADP binding site [chemical binding]; other site 318167002323 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 318167002324 peptide chain release factor 1; Validated; Region: prfA; PRK00591 318167002325 This domain is found in peptide chain release factors; Region: PCRF; smart00937 318167002326 RF-1 domain; Region: RF-1; pfam00472 318167002327 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 318167002328 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 318167002329 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 318167002330 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 318167002331 Tetratricopeptide repeat; Region: TPR_9; pfam13371 318167002332 Protein of unknown function (DUF819); Region: DUF819; cl02317 318167002333 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 318167002334 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 318167002335 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 318167002336 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 318167002337 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 318167002338 VanZ like family; Region: VanZ; cl01971 318167002339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 318167002340 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 318167002341 Ribosome recycling factor; Region: RRF_GI; pfam12614 318167002342 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 318167002343 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 318167002344 DNA-binding site [nucleotide binding]; DNA binding site 318167002345 RNA-binding motif; other site 318167002346 YcaO domain protein; Region: TIGR03549 318167002347 OsmC-like protein; Region: OsmC; pfam02566 318167002348 YcaO-like family; Region: YcaO; pfam02624 318167002349 CotH protein; Region: CotH; pfam08757 318167002350 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 318167002351 lipid-transfer protein; Provisional; Region: PRK08256 318167002352 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 318167002353 active site 318167002354 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 318167002355 Alg9-like mannosyltransferase family; Region: Glyco_transf_22; cl17751 318167002356 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 318167002357 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 318167002358 catalytic residues [active] 318167002359 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 318167002360 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 318167002361 putative molybdopterin cofactor binding site [chemical binding]; other site 318167002362 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 318167002363 putative molybdopterin cofactor binding site; other site 318167002364 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 318167002365 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167002366 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167002367 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 318167002368 dimerization interface [polypeptide binding]; other site 318167002369 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 318167002370 HSP70 interaction site [polypeptide binding]; other site 318167002371 Transposase; Region: HTH_Tnp_1; pfam01527 318167002372 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 318167002373 putative transposase OrfB; Reviewed; Region: PHA02517 318167002374 HTH-like domain; Region: HTH_21; pfam13276 318167002375 Integrase core domain; Region: rve; pfam00665 318167002376 Integrase core domain; Region: rve_3; pfam13683 318167002377 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167002378 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 318167002379 dimer interface [polypeptide binding]; other site 318167002380 putative metal binding site [ion binding]; other site 318167002381 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 318167002382 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 318167002383 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167002384 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167002385 metal binding site [ion binding]; metal-binding site 318167002386 active site 318167002387 I-site; other site 318167002388 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 318167002389 nudix motif; other site 318167002390 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 318167002391 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 318167002392 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 318167002393 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 318167002394 putative catalytic cysteine [active] 318167002395 gamma-glutamyl kinase; Provisional; Region: PRK13402 318167002396 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 318167002397 nucleotide binding site [chemical binding]; other site 318167002398 homotetrameric interface [polypeptide binding]; other site 318167002399 putative phosphate binding site [ion binding]; other site 318167002400 putative allosteric binding site; other site 318167002401 PUA domain; Region: PUA; cl00607 318167002402 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 318167002403 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 318167002404 Na binding site [ion binding]; other site 318167002405 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167002406 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318167002407 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 318167002408 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 318167002409 NADP binding site [chemical binding]; other site 318167002410 dimer interface [polypeptide binding]; other site 318167002411 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 318167002412 dimerization interface [polypeptide binding]; other site 318167002413 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167002414 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167002415 metal binding site [ion binding]; metal-binding site 318167002416 active site 318167002417 I-site; other site 318167002418 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 318167002419 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 318167002420 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167002421 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 318167002422 Penicillin amidase; Region: Penicil_amidase; pfam01804 318167002423 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 318167002424 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 318167002425 active site 318167002426 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 318167002427 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 318167002428 Carbon starvation protein CstA; Region: CstA; pfam02554 318167002429 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 318167002430 4Fe-4S binding domain; Region: Fer4_5; pfam12801 318167002431 4Fe-4S binding domain; Region: Fer4_5; pfam12801 318167002432 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 318167002433 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 318167002434 putative active site [active] 318167002435 Zn binding site [ion binding]; other site 318167002436 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 318167002437 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 318167002438 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167002439 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167002440 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 318167002441 putative effector binding pocket; other site 318167002442 dimerization interface [polypeptide binding]; other site 318167002443 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 318167002444 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 318167002445 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 318167002446 DNA photolyase; Region: DNA_photolyase; pfam00875 318167002447 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 318167002448 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 318167002449 NADH(P)-binding; Region: NAD_binding_10; pfam13460 318167002450 NAD binding site [chemical binding]; other site 318167002451 substrate binding site [chemical binding]; other site 318167002452 putative active site [active] 318167002453 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 318167002454 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 318167002455 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167002456 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 318167002457 putative dimerization interface [polypeptide binding]; other site 318167002458 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 318167002459 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 318167002460 gating phenylalanine in ion channel; other site 318167002461 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 318167002462 putative deacylase active site [active] 318167002463 hypothetical protein; Provisional; Region: PRK03641 318167002464 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 318167002465 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 318167002466 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 318167002467 active site 318167002468 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 318167002469 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 318167002470 sulfotransferase; Region: PLN02164 318167002471 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 318167002472 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 318167002473 Sulfate transporter family; Region: Sulfate_transp; pfam00916 318167002474 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 318167002475 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 318167002476 Ligand Binding Site [chemical binding]; other site 318167002477 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 318167002478 Ligand Binding Site [chemical binding]; other site 318167002479 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 318167002480 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 318167002481 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 318167002482 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167002483 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 318167002484 4Fe-4S binding domain; Region: Fer4; pfam00037 318167002485 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 318167002486 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 318167002487 [4Fe-4S] binding site [ion binding]; other site 318167002488 molybdopterin cofactor binding site; other site 318167002489 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 318167002490 molybdopterin cofactor binding site; other site 318167002491 oxidative stress defense protein; Provisional; Region: PRK11087 318167002492 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167002493 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167002494 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 318167002495 substrate binding pocket [chemical binding]; other site 318167002496 dimerization interface [polypeptide binding]; other site 318167002497 hypothetical protein; Provisional; Region: PRK06208 318167002498 intersubunit interface [polypeptide binding]; other site 318167002499 active site 318167002500 Zn2+ binding site [ion binding]; other site 318167002501 bile acid transporter; Region: bass; TIGR00841 318167002502 Sodium Bile acid symporter family; Region: SBF; cl17470 318167002503 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 318167002504 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 318167002505 PAS domain; Region: PAS_9; pfam13426 318167002506 putative active site [active] 318167002507 heme pocket [chemical binding]; other site 318167002508 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167002509 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167002510 metal binding site [ion binding]; metal-binding site 318167002511 active site 318167002512 I-site; other site 318167002513 Domain of unknown function (DUF1888); Region: DUF1888; pfam08985 318167002514 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318167002515 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 318167002516 DNA binding site [nucleotide binding] 318167002517 AAA ATPase domain; Region: AAA_16; pfam13191 318167002518 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 318167002519 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 318167002520 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 318167002521 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 318167002522 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 318167002523 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 318167002524 active site 318167002525 PAS fold; Region: PAS_4; pfam08448 318167002526 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167002527 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167002528 metal binding site [ion binding]; metal-binding site 318167002529 active site 318167002530 I-site; other site 318167002531 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 318167002532 MarR family; Region: MarR; pfam01047 318167002533 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 318167002534 Prostaglandin dehydrogenases; Region: PGDH; cd05288 318167002535 NAD(P) binding site [chemical binding]; other site 318167002536 substrate binding site [chemical binding]; other site 318167002537 dimer interface [polypeptide binding]; other site 318167002538 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 318167002539 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 318167002540 potential catalytic triad [active] 318167002541 conserved cys residue [active] 318167002542 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318167002543 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 318167002544 putative C-terminal domain interface [polypeptide binding]; other site 318167002545 putative GSH binding site (G-site) [chemical binding]; other site 318167002546 putative dimer interface [polypeptide binding]; other site 318167002547 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318167002548 N-terminal domain interface [polypeptide binding]; other site 318167002549 dimer interface [polypeptide binding]; other site 318167002550 substrate binding pocket (H-site) [chemical binding]; other site 318167002551 TIGR03899 family protein; Region: TIGR03899 318167002552 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318167002553 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 318167002554 putative substrate translocation pore; other site 318167002555 Imelysin; Region: Peptidase_M75; pfam09375 318167002556 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 318167002557 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 318167002558 Flavodoxin domain; Region: Flavodoxin_5; cl17428 318167002559 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167002560 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167002561 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 318167002562 putative effector binding pocket; other site 318167002563 dimerization interface [polypeptide binding]; other site 318167002564 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 318167002565 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 318167002566 active site 318167002567 catalytic tetrad [active] 318167002568 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 318167002569 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 318167002570 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 318167002571 active site 318167002572 catalytic site [active] 318167002573 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 318167002574 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 318167002575 catalytic residues [active] 318167002576 hinge region; other site 318167002577 alpha helical domain; other site 318167002578 DNA-J related protein; Region: DNAJ_related; pfam12339 318167002579 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 318167002580 HSP70 interaction site [polypeptide binding]; other site 318167002581 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318167002582 active site 318167002583 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 318167002584 Peptidase family U32; Region: Peptidase_U32; pfam01136 318167002585 Collagenase; Region: DUF3656; pfam12392 318167002586 Protein of unknown function (DUF3622); Region: DUF3622; pfam12286 318167002587 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 318167002588 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318167002589 N-terminal plug; other site 318167002590 ligand-binding site [chemical binding]; other site 318167002591 HDOD domain; Region: HDOD; pfam08668 318167002592 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167002593 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167002594 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 318167002595 putative dimerization interface [polypeptide binding]; other site 318167002596 Dodecin; Region: Dodecin; pfam07311 318167002597 epoxyqueuosine reductase; Region: TIGR00276 318167002598 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 318167002599 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167002600 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167002601 metal binding site [ion binding]; metal-binding site 318167002602 active site 318167002603 I-site; other site 318167002604 Protein of unknown function (DUF3069); Region: DUF3069; pfam11269 318167002605 malate dehydrogenase; Provisional; Region: PRK13529 318167002606 Malic enzyme, N-terminal domain; Region: malic; pfam00390 318167002607 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 318167002608 NAD(P) binding site [chemical binding]; other site 318167002609 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 318167002610 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 318167002611 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 318167002612 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 318167002613 Bacterial PH domain; Region: DUF304; pfam03703 318167002614 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318167002615 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 318167002616 N-terminal plug; other site 318167002617 ligand-binding site [chemical binding]; other site 318167002618 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318167002619 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 318167002620 putative C-terminal domain interface [polypeptide binding]; other site 318167002621 putative GSH binding site (G-site) [chemical binding]; other site 318167002622 putative dimer interface [polypeptide binding]; other site 318167002623 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318167002624 dimer interface [polypeptide binding]; other site 318167002625 N-terminal domain interface [polypeptide binding]; other site 318167002626 substrate binding pocket (H-site) [chemical binding]; other site 318167002627 Predicted transcriptional regulator [Transcription]; Region: COG2944 318167002628 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 318167002629 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 318167002630 metal binding triad [ion binding]; metal-binding site 318167002631 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 318167002632 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 318167002633 active site 318167002634 Zn binding site [ion binding]; other site 318167002635 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 318167002636 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 318167002637 RNA binding surface [nucleotide binding]; other site 318167002638 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 318167002639 active site 318167002640 uracil binding [chemical binding]; other site 318167002641 Uncharacterized conserved protein [Function unknown]; Region: COG3595 318167002642 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 318167002643 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 318167002644 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167002645 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 318167002646 DNA binding residues [nucleotide binding] 318167002647 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 318167002648 HAMP domain; Region: HAMP; pfam00672 318167002649 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167002650 dimer interface [polypeptide binding]; other site 318167002651 putative CheW interface [polypeptide binding]; other site 318167002652 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 318167002653 tetramer (dimer of dimers) interface [polypeptide binding]; other site 318167002654 active site 318167002655 dimer interface [polypeptide binding]; other site 318167002656 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 318167002657 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318167002658 AAA ATPase domain; Region: AAA_16; pfam13191 318167002659 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 318167002660 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 318167002661 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 318167002662 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 318167002663 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 318167002664 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 318167002665 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318167002666 putative substrate translocation pore; other site 318167002667 HopJ type III effector protein; Region: HopJ; pfam08888 318167002668 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 318167002669 Cytochrome c; Region: Cytochrom_C; pfam00034 318167002670 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 318167002671 Cytochrome c; Region: Cytochrom_C; cl11414 318167002672 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 318167002673 Cytochrome c; Region: Cytochrom_C; pfam00034 318167002674 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 318167002675 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 318167002676 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 318167002677 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318167002678 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 318167002679 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318167002680 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 318167002681 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 318167002682 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 318167002683 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167002684 dimer interface [polypeptide binding]; other site 318167002685 putative CheW interface [polypeptide binding]; other site 318167002686 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 318167002687 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 318167002688 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 318167002689 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318167002690 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318167002691 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318167002692 Transposase; Region: HTH_Tnp_1; pfam01527 318167002693 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 318167002694 putative transposase OrfB; Reviewed; Region: PHA02517 318167002695 HTH-like domain; Region: HTH_21; pfam13276 318167002696 Integrase core domain; Region: rve; pfam00665 318167002697 Integrase core domain; Region: rve_3; pfam13683 318167002698 thioredoxin 2; Provisional; Region: PRK10996 318167002699 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 318167002700 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 318167002701 catalytic residues [active] 318167002702 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 318167002703 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 318167002704 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...; Region: Lipase_3; cd00519 318167002705 active site flap/lid [active] 318167002706 nucleophilic elbow; other site 318167002707 catalytic triad [active] 318167002708 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 318167002709 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 318167002710 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 318167002711 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 318167002712 substrate binding pocket [chemical binding]; other site 318167002713 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 318167002714 B12 binding site [chemical binding]; other site 318167002715 cobalt ligand [ion binding]; other site 318167002716 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 318167002717 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 318167002718 catalytic core [active] 318167002719 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 318167002720 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 318167002721 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 318167002722 Walker A/P-loop; other site 318167002723 ATP binding site [chemical binding]; other site 318167002724 Q-loop/lid; other site 318167002725 ABC transporter signature motif; other site 318167002726 Walker B; other site 318167002727 D-loop; other site 318167002728 H-loop/switch region; other site 318167002729 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 318167002730 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 318167002731 ABC-ATPase subunit interface; other site 318167002732 dimer interface [polypeptide binding]; other site 318167002733 putative PBP binding regions; other site 318167002734 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 318167002735 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 318167002736 putative dimer interface [polypeptide binding]; other site 318167002737 active site pocket [active] 318167002738 putative cataytic base [active] 318167002739 cobalamin synthase; Reviewed; Region: cobS; PRK00235 318167002740 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 318167002741 homotrimer interface [polypeptide binding]; other site 318167002742 Walker A motif; other site 318167002743 GTP binding site [chemical binding]; other site 318167002744 Walker B motif; other site 318167002745 cobyric acid synthase; Provisional; Region: PRK00784 318167002746 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 318167002747 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 318167002748 catalytic triad [active] 318167002749 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 318167002750 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 318167002751 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 318167002752 homodimer interface [polypeptide binding]; other site 318167002753 Walker A motif; other site 318167002754 ATP binding site [chemical binding]; other site 318167002755 hydroxycobalamin binding site [chemical binding]; other site 318167002756 Walker B motif; other site 318167002757 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318167002758 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 318167002759 substrate binding pocket [chemical binding]; other site 318167002760 membrane-bound complex binding site; other site 318167002761 hinge residues; other site 318167002762 Predicted transcriptional regulators [Transcription]; Region: COG1733 318167002763 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 318167002764 dimerization interface [polypeptide binding]; other site 318167002765 putative DNA binding site [nucleotide binding]; other site 318167002766 putative Zn2+ binding site [ion binding]; other site 318167002767 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318167002768 NAD(P)+ dependent aldehyde dehydrogenase family; Region: ALDH; cd07078 318167002769 NAD(P) binding site [chemical binding]; other site 318167002770 catalytic residues [active] 318167002771 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 318167002772 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 318167002773 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 318167002774 active site 318167002775 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 318167002776 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 318167002777 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167002778 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 318167002779 ABC1 family; Region: ABC1; pfam03109 318167002780 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 318167002781 active site 318167002782 ATP binding site [chemical binding]; other site 318167002783 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 318167002784 binding surface 318167002785 Tetratricopeptide repeat; Region: TPR_16; pfam13432 318167002786 TPR motif; other site 318167002787 TPR repeat; Region: TPR_11; pfam13414 318167002788 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 318167002789 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 318167002790 SEC-C motif; Region: SEC-C; pfam02810 318167002791 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 318167002792 SEC-C motif; Region: SEC-C; pfam02810 318167002793 Isochorismatase family; Region: Isochorismatase; pfam00857 318167002794 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 318167002795 catalytic triad [active] 318167002796 dimer interface [polypeptide binding]; other site 318167002797 conserved cis-peptide bond; other site 318167002798 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 318167002799 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 318167002800 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 318167002801 cobalamin binding residues [chemical binding]; other site 318167002802 putative BtuC binding residues; other site 318167002803 dimer interface [polypeptide binding]; other site 318167002804 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167002805 HlyD family secretion protein; Region: HlyD_3; pfam13437 318167002806 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 318167002807 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 318167002808 Walker A/P-loop; other site 318167002809 ATP binding site [chemical binding]; other site 318167002810 Q-loop/lid; other site 318167002811 ABC transporter signature motif; other site 318167002812 Walker B; other site 318167002813 D-loop; other site 318167002814 H-loop/switch region; other site 318167002815 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 318167002816 FtsX-like permease family; Region: FtsX; pfam02687 318167002817 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 318167002818 FtsX-like permease family; Region: FtsX; pfam02687 318167002819 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318167002820 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167002821 active site 318167002822 phosphorylation site [posttranslational modification] 318167002823 intermolecular recognition site; other site 318167002824 dimerization interface [polypeptide binding]; other site 318167002825 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 318167002826 Walker A motif; other site 318167002827 ATP binding site [chemical binding]; other site 318167002828 Walker B motif; other site 318167002829 arginine finger; other site 318167002830 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318167002831 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 318167002832 PAS domain; Region: PAS_8; pfam13188 318167002833 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 318167002834 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 318167002835 ATP binding site [chemical binding]; other site 318167002836 Mg2+ binding site [ion binding]; other site 318167002837 G-X-G motif; other site 318167002838 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 318167002839 hypothetical protein; Provisional; Region: PRK05409 318167002840 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 318167002841 MAPEG family; Region: MAPEG; cl09190 318167002842 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 318167002843 putative uracil binding site [chemical binding]; other site 318167002844 putative active site [active] 318167002845 YcxB-like protein; Region: YcxB; pfam14317 318167002846 PII uridylyl-transferase; Provisional; Region: PRK05007 318167002847 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 318167002848 metal binding triad; other site 318167002849 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 318167002850 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318167002851 Zn2+ binding site [ion binding]; other site 318167002852 Mg2+ binding site [ion binding]; other site 318167002853 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 318167002854 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 318167002855 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 318167002856 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 318167002857 active site 318167002858 uracil binding [chemical binding]; other site 318167002859 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167002860 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 318167002861 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 318167002862 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 318167002863 putative substrate translocation pore; other site 318167002864 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318167002865 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 318167002866 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 318167002867 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 318167002868 HIGH motif; other site 318167002869 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 318167002870 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 318167002871 active site 318167002872 KMSKS motif; other site 318167002873 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 318167002874 tRNA binding surface [nucleotide binding]; other site 318167002875 anticodon binding site; other site 318167002876 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 318167002877 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 318167002878 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167002879 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167002880 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 318167002881 putative effector binding pocket; other site 318167002882 putative dimerization interface [polypeptide binding]; other site 318167002883 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 318167002884 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167002885 NAD(P) binding site [chemical binding]; other site 318167002886 active site 318167002887 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 318167002888 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 318167002889 substrate binding pocket [chemical binding]; other site 318167002890 membrane-bound complex binding site; other site 318167002891 hinge residues; other site 318167002892 putative transporter; Provisional; Region: PRK11043 318167002893 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 318167002894 putative substrate translocation pore; other site 318167002895 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 318167002896 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167002897 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 318167002898 dimerization interface [polypeptide binding]; other site 318167002899 multifunctional aminopeptidase A; Provisional; Region: PRK00913 318167002900 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 318167002901 interface (dimer of trimers) [polypeptide binding]; other site 318167002902 Substrate-binding/catalytic site; other site 318167002903 Zn-binding sites [ion binding]; other site 318167002904 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 318167002905 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 318167002906 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 318167002907 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 318167002908 RDD family; Region: RDD; pfam06271 318167002909 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 318167002910 Protein of unknown function, DUF486; Region: DUF486; pfam04342 318167002911 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 318167002912 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167002913 Coenzyme A binding pocket [chemical binding]; other site 318167002914 DsrE/DsrF-like family; Region: DrsE; pfam02635 318167002915 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318167002916 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 318167002917 substrate binding pocket [chemical binding]; other site 318167002918 membrane-bound complex binding site; other site 318167002919 hinge residues; other site 318167002920 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 318167002921 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 318167002922 Predicted Fe-S protein [General function prediction only]; Region: COG3313 318167002923 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167002924 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318167002925 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 318167002926 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 318167002927 NAD(P) binding site [chemical binding]; other site 318167002928 catalytic residues [active] 318167002929 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 318167002930 Ligand Binding Site [chemical binding]; other site 318167002931 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 318167002932 Predicted membrane protein [Function unknown]; Region: COG3428 318167002933 Bacterial PH domain; Region: DUF304; pfam03703 318167002934 Bacterial PH domain; Region: DUF304; pfam03703 318167002935 Bacterial PH domain; Region: DUF304; cl01348 318167002936 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; pfam09904 318167002937 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 318167002938 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 318167002939 oligomer interface [polypeptide binding]; other site 318167002940 metal binding site [ion binding]; metal-binding site 318167002941 metal binding site [ion binding]; metal-binding site 318167002942 putative Cl binding site [ion binding]; other site 318167002943 aspartate ring; other site 318167002944 basic sphincter; other site 318167002945 hydrophobic gate; other site 318167002946 periplasmic entrance; other site 318167002947 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 318167002948 BolA-like protein; Region: BolA; cl00386 318167002949 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 318167002950 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 318167002951 S-ribosylhomocysteinase; Provisional; Region: PRK02260 318167002952 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167002953 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 318167002954 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 318167002955 E3 interaction surface; other site 318167002956 lipoyl attachment site [posttranslational modification]; other site 318167002957 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 318167002958 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 318167002959 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 318167002960 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 318167002961 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 318167002962 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 318167002963 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 318167002964 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 318167002965 FAD binding pocket [chemical binding]; other site 318167002966 FAD binding motif [chemical binding]; other site 318167002967 phosphate binding motif [ion binding]; other site 318167002968 beta-alpha-beta structure motif; other site 318167002969 NAD binding pocket [chemical binding]; other site 318167002970 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 318167002971 ApbE family; Region: ApbE; pfam02424 318167002972 Protein of unknown function (DUF539); Region: DUF539; cl01129 318167002973 Protein of unknown function (DUF539); Region: DUF539; pfam04400 318167002974 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 318167002975 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 318167002976 heme binding site [chemical binding]; other site 318167002977 ferroxidase pore; other site 318167002978 ferroxidase diiron center [ion binding]; other site 318167002979 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 318167002980 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 318167002981 heme binding site [chemical binding]; other site 318167002982 ferroxidase pore; other site 318167002983 ferroxidase diiron center [ion binding]; other site 318167002984 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 318167002985 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 318167002986 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 318167002987 active site 318167002988 DNA polymerase IV; Validated; Region: PRK02406 318167002989 DNA binding site [nucleotide binding] 318167002990 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 318167002991 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 318167002992 metal binding site [ion binding]; metal-binding site 318167002993 dimer interface [polypeptide binding]; other site 318167002994 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 318167002995 interface (dimer of trimers) [polypeptide binding]; other site 318167002996 Substrate-binding/catalytic site; other site 318167002997 Zn-binding sites [ion binding]; other site 318167002998 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 318167002999 gamma-glutamyl kinase; Provisional; Region: PRK05429 318167003000 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 318167003001 nucleotide binding site [chemical binding]; other site 318167003002 homotetrameric interface [polypeptide binding]; other site 318167003003 putative phosphate binding site [ion binding]; other site 318167003004 putative allosteric binding site; other site 318167003005 PUA domain; Region: PUA; pfam01472 318167003006 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 318167003007 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 318167003008 putative catalytic cysteine [active] 318167003009 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 318167003010 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 318167003011 nucleotide binding site [chemical binding]; other site 318167003012 chaperone protein DnaJ; Provisional; Region: PRK10767 318167003013 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 318167003014 HSP70 interaction site [polypeptide binding]; other site 318167003015 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 318167003016 substrate binding site [polypeptide binding]; other site 318167003017 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 318167003018 Zn binding sites [ion binding]; other site 318167003019 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 318167003020 dimer interface [polypeptide binding]; other site 318167003021 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 318167003022 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 318167003023 ATP binding site [chemical binding]; other site 318167003024 Mg++ binding site [ion binding]; other site 318167003025 motif III; other site 318167003026 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 318167003027 nucleotide binding region [chemical binding]; other site 318167003028 ATP-binding site [chemical binding]; other site 318167003029 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 318167003030 Peptidase family M48; Region: Peptidase_M48; pfam01435 318167003031 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 318167003032 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 318167003033 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 318167003034 dihydrodipicolinate reductase; Provisional; Region: PRK00048 318167003035 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 318167003036 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 318167003037 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 318167003038 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 318167003039 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 318167003040 catalytic site [active] 318167003041 subunit interface [polypeptide binding]; other site 318167003042 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 318167003043 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 318167003044 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 318167003045 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 318167003046 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 318167003047 ATP-grasp domain; Region: ATP-grasp_4; cl17255 318167003048 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 318167003049 IMP binding site; other site 318167003050 dimer interface [polypeptide binding]; other site 318167003051 interdomain contacts; other site 318167003052 partial ornithine binding site; other site 318167003053 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 318167003054 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 318167003055 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 318167003056 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK12933 318167003057 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 318167003058 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 318167003059 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13021 318167003060 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 318167003061 Protein export membrane protein; Region: SecD_SecF; pfam02355 318167003062 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 318167003063 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 318167003064 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 318167003065 S-adenosylmethionine binding site [chemical binding]; other site 318167003066 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 318167003067 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 318167003068 Walker A motif; other site 318167003069 ATP binding site [chemical binding]; other site 318167003070 Walker B motif; other site 318167003071 arginine finger; other site 318167003072 Peptidase family M41; Region: Peptidase_M41; pfam01434 318167003073 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 318167003074 dihydropteroate synthase; Region: DHPS; TIGR01496 318167003075 substrate binding pocket [chemical binding]; other site 318167003076 dimer interface [polypeptide binding]; other site 318167003077 inhibitor binding site; inhibition site 318167003078 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 318167003079 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 318167003080 active site 318167003081 substrate binding site [chemical binding]; other site 318167003082 metal binding site [ion binding]; metal-binding site 318167003083 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 318167003084 triosephosphate isomerase; Provisional; Region: PRK14567 318167003085 substrate binding site [chemical binding]; other site 318167003086 dimer interface [polypeptide binding]; other site 318167003087 catalytic triad [active] 318167003088 Preprotein translocase SecG subunit; Region: SecG; pfam03840 318167003089 ribosome maturation protein RimP; Reviewed; Region: PRK00092 318167003090 Sm and related proteins; Region: Sm_like; cl00259 318167003091 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 318167003092 putative oligomer interface [polypeptide binding]; other site 318167003093 putative RNA binding site [nucleotide binding]; other site 318167003094 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 318167003095 NusA N-terminal domain; Region: NusA_N; pfam08529 318167003096 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 318167003097 RNA binding site [nucleotide binding]; other site 318167003098 homodimer interface [polypeptide binding]; other site 318167003099 NusA-like KH domain; Region: KH_5; pfam13184 318167003100 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 318167003101 G-X-X-G motif; other site 318167003102 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 318167003103 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 318167003104 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 318167003105 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 318167003106 translation initiation factor IF-2; Region: IF-2; TIGR00487 318167003107 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 318167003108 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 318167003109 G1 box; other site 318167003110 putative GEF interaction site [polypeptide binding]; other site 318167003111 GTP/Mg2+ binding site [chemical binding]; other site 318167003112 Switch I region; other site 318167003113 G2 box; other site 318167003114 G3 box; other site 318167003115 Switch II region; other site 318167003116 G4 box; other site 318167003117 G5 box; other site 318167003118 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 318167003119 Translation-initiation factor 2; Region: IF-2; pfam11987 318167003120 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 318167003121 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 318167003122 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 318167003123 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 318167003124 RNA binding site [nucleotide binding]; other site 318167003125 active site 318167003126 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 318167003127 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 318167003128 16S/18S rRNA binding site [nucleotide binding]; other site 318167003129 S13e-L30e interaction site [polypeptide binding]; other site 318167003130 25S rRNA binding site [nucleotide binding]; other site 318167003131 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167003132 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167003133 metal binding site [ion binding]; metal-binding site 318167003134 active site 318167003135 I-site; other site 318167003136 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 318167003137 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 318167003138 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 318167003139 RNase E interface [polypeptide binding]; other site 318167003140 trimer interface [polypeptide binding]; other site 318167003141 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 318167003142 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 318167003143 RNase E interface [polypeptide binding]; other site 318167003144 trimer interface [polypeptide binding]; other site 318167003145 active site 318167003146 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 318167003147 putative nucleic acid binding region [nucleotide binding]; other site 318167003148 G-X-X-G motif; other site 318167003149 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 318167003150 RNA binding site [nucleotide binding]; other site 318167003151 domain interface; other site 318167003152 lipoprotein NlpI; Provisional; Region: PRK11189 318167003153 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 318167003154 binding surface 318167003155 TPR motif; other site 318167003156 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 318167003157 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 318167003158 G1 box; other site 318167003159 putative GEF interaction site [polypeptide binding]; other site 318167003160 GTP/Mg2+ binding site [chemical binding]; other site 318167003161 Switch I region; other site 318167003162 G2 box; other site 318167003163 G3 box; other site 318167003164 Switch II region; other site 318167003165 G4 box; other site 318167003166 G5 box; other site 318167003167 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 318167003168 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 318167003169 active site 318167003170 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 318167003171 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 318167003172 Nucleoside recognition; Region: Gate; pfam07670 318167003173 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 318167003174 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; pfam03502 318167003175 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 318167003176 intersubunit interface [polypeptide binding]; other site 318167003177 active site 318167003178 catalytic residue [active] 318167003179 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 318167003180 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 318167003181 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 318167003182 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 318167003183 phosphopentomutase; Provisional; Region: PRK05362 318167003184 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 318167003185 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 318167003186 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 318167003187 phosphoserine phosphatase SerB; Region: serB; TIGR00338 318167003188 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 318167003189 motif II; other site 318167003190 Soluble P-type ATPase [General function prediction only]; Region: COG4087 318167003191 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 318167003192 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167003193 PilZ domain; Region: PilZ; pfam07238 318167003194 PilZ domain; Region: PilZ; pfam07238 318167003195 DNA repair protein RadA; Provisional; Region: PRK11823 318167003196 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 318167003197 Walker A motif; other site 318167003198 ATP binding site [chemical binding]; other site 318167003199 Walker B motif; other site 318167003200 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 318167003201 PilZ domain; Region: PilZ; pfam07238 318167003202 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 318167003203 putative protease; Provisional; Region: PRK15447 318167003204 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 318167003205 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 318167003206 Peptidase family U32; Region: Peptidase_U32; pfam01136 318167003207 SCP-2 sterol transfer family; Region: SCP2; cl01225 318167003208 Bacterial Ig-like domain; Region: Big_5; pfam13205 318167003209 Bacterial Ig-like domain; Region: Big_5; pfam13205 318167003210 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 318167003211 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 318167003212 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 318167003213 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 318167003214 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 318167003215 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 318167003216 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 318167003217 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 318167003218 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 318167003219 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 318167003220 putative active site [active] 318167003221 heme pocket [chemical binding]; other site 318167003222 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 318167003223 putative active site [active] 318167003224 heme pocket [chemical binding]; other site 318167003225 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 318167003226 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 318167003227 putative active site [active] 318167003228 heme pocket [chemical binding]; other site 318167003229 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 318167003230 dimer interface [polypeptide binding]; other site 318167003231 phosphorylation site [posttranslational modification] 318167003232 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 318167003233 ATP binding site [chemical binding]; other site 318167003234 Mg2+ binding site [ion binding]; other site 318167003235 G-X-G motif; other site 318167003236 Response regulator receiver domain; Region: Response_reg; pfam00072 318167003237 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167003238 active site 318167003239 phosphorylation site [posttranslational modification] 318167003240 intermolecular recognition site; other site 318167003241 dimerization interface [polypeptide binding]; other site 318167003242 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318167003243 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167003244 active site 318167003245 phosphorylation site [posttranslational modification] 318167003246 intermolecular recognition site; other site 318167003247 dimerization interface [polypeptide binding]; other site 318167003248 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 318167003249 Walker A motif; other site 318167003250 ATP binding site [chemical binding]; other site 318167003251 Walker B motif; other site 318167003252 arginine finger; other site 318167003253 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318167003254 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 318167003255 putative protease; Provisional; Region: PRK15452 318167003256 Peptidase family U32; Region: Peptidase_U32; pfam01136 318167003257 HDOD domain; Region: HDOD; pfam08668 318167003258 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167003259 metal binding site [ion binding]; metal-binding site 318167003260 active site 318167003261 I-site; other site 318167003262 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 318167003263 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 318167003264 active site 318167003265 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318167003266 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 318167003267 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 318167003268 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167003269 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167003270 metal binding site [ion binding]; metal-binding site 318167003271 active site 318167003272 I-site; other site 318167003273 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 318167003274 Uncharacterized conserved protein [Function unknown]; Region: COG1432 318167003275 LabA_like proteins; Region: LabA_like/DUF88; cl10034 318167003276 putative metal binding site [ion binding]; other site 318167003277 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318167003278 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167003279 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 318167003280 HlyD family secretion protein; Region: HlyD_3; pfam13437 318167003281 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 318167003282 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318167003283 Walker A/P-loop; other site 318167003284 ATP binding site [chemical binding]; other site 318167003285 Q-loop/lid; other site 318167003286 ABC transporter signature motif; other site 318167003287 Walker B; other site 318167003288 D-loop; other site 318167003289 H-loop/switch region; other site 318167003290 ABC transporter; Region: ABC_tran_2; pfam12848 318167003291 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318167003292 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 318167003293 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 318167003294 dimer interface [polypeptide binding]; other site 318167003295 active site 318167003296 glycine-pyridoxal phosphate binding site [chemical binding]; other site 318167003297 folate binding site [chemical binding]; other site 318167003298 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 318167003299 ATP cone domain; Region: ATP-cone; pfam03477 318167003300 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 318167003301 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 318167003302 catalytic motif [active] 318167003303 Zn binding site [ion binding]; other site 318167003304 RibD C-terminal domain; Region: RibD_C; cl17279 318167003305 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 318167003306 Lumazine binding domain; Region: Lum_binding; pfam00677 318167003307 Lumazine binding domain; Region: Lum_binding; pfam00677 318167003308 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 318167003309 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 318167003310 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 318167003311 dimerization interface [polypeptide binding]; other site 318167003312 active site 318167003313 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 318167003314 homopentamer interface [polypeptide binding]; other site 318167003315 active site 318167003316 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 318167003317 putative RNA binding site [nucleotide binding]; other site 318167003318 thiamine monophosphate kinase; Provisional; Region: PRK05731 318167003319 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 318167003320 ATP binding site [chemical binding]; other site 318167003321 dimerization interface [polypeptide binding]; other site 318167003322 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 318167003323 tetramer interfaces [polypeptide binding]; other site 318167003324 binuclear metal-binding site [ion binding]; other site 318167003325 recombination and repair protein; Provisional; Region: PRK10869 318167003326 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 318167003327 Walker A/P-loop; other site 318167003328 ATP binding site [chemical binding]; other site 318167003329 Q-loop/lid; other site 318167003330 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 318167003331 ABC transporter signature motif; other site 318167003332 Walker B; other site 318167003333 D-loop; other site 318167003334 H-loop/switch region; other site 318167003335 Predicted permeases [General function prediction only]; Region: COG0679 318167003336 Protein of unknown function (DUF3319); Region: DUF3319; pfam11782 318167003337 Protein of unknown function (DUF416); Region: DUF416; pfam04222 318167003338 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 318167003339 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 318167003340 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 318167003341 dimerization interface [polypeptide binding]; other site 318167003342 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 318167003343 dimer interface [polypeptide binding]; other site 318167003344 phosphorylation site [posttranslational modification] 318167003345 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 318167003346 ATP binding site [chemical binding]; other site 318167003347 Mg2+ binding site [ion binding]; other site 318167003348 G-X-G motif; other site 318167003349 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167003350 active site 318167003351 phosphorylation site [posttranslational modification] 318167003352 intermolecular recognition site; other site 318167003353 dimerization interface [polypeptide binding]; other site 318167003354 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 318167003355 putative binding surface; other site 318167003356 active site 318167003357 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 318167003358 TRAM domain; Region: TRAM; pfam01938 318167003359 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 318167003360 S-adenosylmethionine binding site [chemical binding]; other site 318167003361 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 318167003362 HD domain; Region: HD_4; pfam13328 318167003363 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 318167003364 synthetase active site [active] 318167003365 NTP binding site [chemical binding]; other site 318167003366 metal binding site [ion binding]; metal-binding site 318167003367 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 318167003368 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 318167003369 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 318167003370 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 318167003371 homodimer interface [polypeptide binding]; other site 318167003372 metal binding site [ion binding]; metal-binding site 318167003373 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 318167003374 homodimer interface [polypeptide binding]; other site 318167003375 active site 318167003376 putative chemical substrate binding site [chemical binding]; other site 318167003377 metal binding site [ion binding]; metal-binding site 318167003378 CTP synthetase; Validated; Region: pyrG; PRK05380 318167003379 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 318167003380 Catalytic site [active] 318167003381 active site 318167003382 UTP binding site [chemical binding]; other site 318167003383 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 318167003384 active site 318167003385 putative oxyanion hole; other site 318167003386 catalytic triad [active] 318167003387 enolase; Provisional; Region: eno; PRK00077 318167003388 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 318167003389 dimer interface [polypeptide binding]; other site 318167003390 metal binding site [ion binding]; metal-binding site 318167003391 substrate binding pocket [chemical binding]; other site 318167003392 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 318167003393 Septum formation initiator; Region: DivIC; cl17659 318167003394 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 318167003395 substrate binding site; other site 318167003396 dimer interface; other site 318167003397 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 318167003398 homotrimer interaction site [polypeptide binding]; other site 318167003399 zinc binding site [ion binding]; other site 318167003400 CDP-binding sites; other site 318167003401 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 318167003402 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 318167003403 Permutation of conserved domain; other site 318167003404 active site 318167003405 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 318167003406 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 318167003407 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 318167003408 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 318167003409 S-adenosylmethionine binding site [chemical binding]; other site 318167003410 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 318167003411 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318167003412 Peptidase family M23; Region: Peptidase_M23; pfam01551 318167003413 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 318167003414 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 318167003415 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167003416 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 318167003417 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 318167003418 DNA binding residues [nucleotide binding] 318167003419 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 318167003420 MutS domain I; Region: MutS_I; pfam01624 318167003421 MutS domain II; Region: MutS_II; pfam05188 318167003422 MutS domain III; Region: MutS_III; pfam05192 318167003423 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 318167003424 Walker A/P-loop; other site 318167003425 ATP binding site [chemical binding]; other site 318167003426 Q-loop/lid; other site 318167003427 ABC transporter signature motif; other site 318167003428 Walker B; other site 318167003429 D-loop; other site 318167003430 H-loop/switch region; other site 318167003431 recombinase A; Provisional; Region: recA; PRK09354 318167003432 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 318167003433 hexamer interface [polypeptide binding]; other site 318167003434 Walker A motif; other site 318167003435 ATP binding site [chemical binding]; other site 318167003436 Walker B motif; other site 318167003437 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 318167003438 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 318167003439 motif 1; other site 318167003440 active site 318167003441 motif 2; other site 318167003442 motif 3; other site 318167003443 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 318167003444 DHHA1 domain; Region: DHHA1; pfam02272 318167003445 carbon storage regulator; Provisional; Region: PRK01712 318167003446 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 318167003447 oxaloacetate decarboxylase; Provisional; Region: PRK14040 318167003448 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 318167003449 active site 318167003450 catalytic residues [active] 318167003451 metal binding site [ion binding]; metal-binding site 318167003452 homodimer binding site [polypeptide binding]; other site 318167003453 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 318167003454 carboxyltransferase (CT) interaction site; other site 318167003455 biotinylation site [posttranslational modification]; other site 318167003456 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 318167003457 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 318167003458 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 318167003459 Predicted membrane protein [Function unknown]; Region: COG1238 318167003460 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 318167003461 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 318167003462 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 318167003463 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 318167003464 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 318167003465 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 318167003466 glutamate--cysteine ligase; Provisional; Region: PRK02107 318167003467 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 318167003468 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318167003469 catalytic residue [active] 318167003470 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 318167003471 ATP-grasp domain; Region: ATP-grasp; pfam02222 318167003472 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 318167003473 von Willebrand factor; Region: vWF_A; pfam12450 318167003474 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 318167003475 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 318167003476 metal ion-dependent adhesion site (MIDAS); other site 318167003477 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 318167003478 RNA polymerase sigma factor; Provisional; Region: PRK12513 318167003479 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167003480 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; cl17257 318167003481 DNA binding residues [nucleotide binding] 318167003482 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 318167003483 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318167003484 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 318167003485 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 318167003486 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 318167003487 protein binding site [polypeptide binding]; other site 318167003488 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 318167003489 Domain interface; other site 318167003490 Peptide binding site; other site 318167003491 Active site tetrad [active] 318167003492 OsmC-like protein; Region: OsmC; cl00767 318167003493 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 318167003494 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 318167003495 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 318167003496 catalytic residues [active] 318167003497 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 318167003498 30S subunit binding site; other site 318167003499 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167003500 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167003501 metal binding site [ion binding]; metal-binding site 318167003502 active site 318167003503 I-site; other site 318167003504 hypothetical protein; Provisional; Region: PRK12378 318167003505 Protein of unknown function (DUF2375); Region: DUF2375; pfam09558 318167003506 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167003507 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318167003508 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 318167003509 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 318167003510 FMN binding site [chemical binding]; other site 318167003511 active site 318167003512 substrate binding site [chemical binding]; other site 318167003513 catalytic residue [active] 318167003514 Leucine rich repeat; Region: LRR_8; pfam13855 318167003515 Leucine rich repeat; Region: LRR_8; pfam13855 318167003516 Protein tyrosine kinase; Region: Pkinase_Tyr; pfam07714 318167003517 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167003518 active site 318167003519 ATP binding site [chemical binding]; other site 318167003520 substrate binding site [chemical binding]; other site 318167003521 activation loop (A-loop); other site 318167003522 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 318167003523 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 318167003524 PhnA protein; Region: PhnA; pfam03831 318167003525 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 318167003526 Sel1-like repeats; Region: SEL1; smart00671 318167003527 Sel1-like repeats; Region: SEL1; smart00671 318167003528 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 318167003529 SmpB-tmRNA interface; other site 318167003530 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 318167003531 putative coenzyme Q binding site [chemical binding]; other site 318167003532 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 318167003533 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 318167003534 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 318167003535 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 318167003536 homodimer interface [polypeptide binding]; other site 318167003537 active site 318167003538 SAM binding site [chemical binding]; other site 318167003539 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 318167003540 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 318167003541 binding surface 318167003542 TPR motif; other site 318167003543 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167003544 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167003545 metal binding site [ion binding]; metal-binding site 318167003546 active site 318167003547 I-site; other site 318167003548 malate synthase A; Region: malate_syn_A; TIGR01344 318167003549 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 318167003550 active site 318167003551 isocitrate lyase; Provisional; Region: PRK15063 318167003552 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 318167003553 tetramer interface [polypeptide binding]; other site 318167003554 active site 318167003555 Mg2+/Mn2+ binding site [ion binding]; other site 318167003556 HDOD domain; Region: HDOD; pfam08668 318167003557 GAF domain; Region: GAF; pfam01590 318167003558 SnoaL-like domain; Region: SnoaL_3; pfam13474 318167003559 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 318167003560 ParA-like protein; Provisional; Region: PHA02518 318167003561 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 318167003562 P-loop; other site 318167003563 Magnesium ion binding site [ion binding]; other site 318167003564 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 318167003565 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 318167003566 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167003567 Coenzyme A binding pocket [chemical binding]; other site 318167003568 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 318167003569 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 318167003570 active site 318167003571 metal binding site [ion binding]; metal-binding site 318167003572 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 318167003573 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 318167003574 Domain of unknown function DUF21; Region: DUF21; pfam01595 318167003575 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 318167003576 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 318167003577 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 318167003578 FeS/SAM binding site; other site 318167003579 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 318167003580 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 318167003581 binding surface 318167003582 TPR motif; other site 318167003583 cytoskeletal protein RodZ; Provisional; Region: PRK10856 318167003584 Helix-turn-helix domain; Region: HTH_25; pfam13413 318167003585 non-specific DNA binding site [nucleotide binding]; other site 318167003586 salt bridge; other site 318167003587 sequence-specific DNA binding site [nucleotide binding]; other site 318167003588 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 318167003589 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 318167003590 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 318167003591 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 318167003592 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 318167003593 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 318167003594 dimer interface [polypeptide binding]; other site 318167003595 motif 1; other site 318167003596 active site 318167003597 motif 2; other site 318167003598 motif 3; other site 318167003599 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 318167003600 anticodon binding site; other site 318167003601 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 318167003602 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 318167003603 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 318167003604 TPR motif; other site 318167003605 binding surface 318167003606 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 318167003607 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 318167003608 Trp docking motif [polypeptide binding]; other site 318167003609 active site 318167003610 GTP-binding protein Der; Reviewed; Region: PRK00093 318167003611 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 318167003612 G1 box; other site 318167003613 GTP/Mg2+ binding site [chemical binding]; other site 318167003614 Switch I region; other site 318167003615 G2 box; other site 318167003616 Switch II region; other site 318167003617 G3 box; other site 318167003618 G4 box; other site 318167003619 G5 box; other site 318167003620 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 318167003621 G1 box; other site 318167003622 GTP/Mg2+ binding site [chemical binding]; other site 318167003623 Switch I region; other site 318167003624 G2 box; other site 318167003625 G3 box; other site 318167003626 Switch II region; other site 318167003627 G4 box; other site 318167003628 G5 box; other site 318167003629 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 318167003630 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 318167003631 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 318167003632 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 318167003633 catalytic residues [active] 318167003634 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 318167003635 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 318167003636 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 318167003637 ApbE family; Region: ApbE; pfam02424 318167003638 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318167003639 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167003640 active site 318167003641 phosphorylation site [posttranslational modification] 318167003642 intermolecular recognition site; other site 318167003643 dimerization interface [polypeptide binding]; other site 318167003644 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 318167003645 DNA binding site [nucleotide binding] 318167003646 sensor protein QseC; Provisional; Region: PRK10337 318167003647 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 318167003648 dimer interface [polypeptide binding]; other site 318167003649 phosphorylation site [posttranslational modification] 318167003650 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 318167003651 ATP binding site [chemical binding]; other site 318167003652 Mg2+ binding site [ion binding]; other site 318167003653 G-X-G motif; other site 318167003654 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 318167003655 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 318167003656 putative carbohydrate binding site [chemical binding]; other site 318167003657 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 318167003658 dimer interface [polypeptide binding]; other site 318167003659 phosphorylation site [posttranslational modification] 318167003660 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 318167003661 ATP binding site [chemical binding]; other site 318167003662 Mg2+ binding site [ion binding]; other site 318167003663 G-X-G motif; other site 318167003664 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318167003665 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167003666 active site 318167003667 phosphorylation site [posttranslational modification] 318167003668 intermolecular recognition site; other site 318167003669 dimerization interface [polypeptide binding]; other site 318167003670 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 318167003671 DNA binding site [nucleotide binding] 318167003672 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 318167003673 GlyGly-CTERM domain; Region: GlyGly_CTERM; TIGR03501 318167003674 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167003675 ligand binding site [chemical binding]; other site 318167003676 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 318167003677 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 318167003678 generic binding surface II; other site 318167003679 generic binding surface I; other site 318167003680 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 318167003681 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 318167003682 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 318167003683 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 318167003684 active site 318167003685 GMP synthase; Reviewed; Region: guaA; PRK00074 318167003686 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 318167003687 AMP/PPi binding site [chemical binding]; other site 318167003688 candidate oxyanion hole; other site 318167003689 catalytic triad [active] 318167003690 potential glutamine specificity residues [chemical binding]; other site 318167003691 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 318167003692 ATP Binding subdomain [chemical binding]; other site 318167003693 Ligand Binding sites [chemical binding]; other site 318167003694 Dimerization subdomain; other site 318167003695 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 318167003696 nucleoside/Zn binding site; other site 318167003697 dimer interface [polypeptide binding]; other site 318167003698 catalytic motif [active] 318167003699 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 318167003700 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 318167003701 substrate binding pocket [chemical binding]; other site 318167003702 membrane-bound complex binding site; other site 318167003703 hinge residues; other site 318167003704 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 318167003705 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318167003706 catalytic residue [active] 318167003707 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 318167003708 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 318167003709 dimerization interface [polypeptide binding]; other site 318167003710 ATP binding site [chemical binding]; other site 318167003711 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 318167003712 dimerization interface [polypeptide binding]; other site 318167003713 ATP binding site [chemical binding]; other site 318167003714 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 318167003715 putative active site [active] 318167003716 catalytic triad [active] 318167003717 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 318167003718 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 318167003719 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 318167003720 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 318167003721 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 318167003722 Protein required for attachment to host cells; Region: Host_attach; pfam10116 318167003723 HAMP domain; Region: HAMP; pfam00672 318167003724 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167003725 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167003726 dimer interface [polypeptide binding]; other site 318167003727 putative CheW interface [polypeptide binding]; other site 318167003728 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318167003729 Protein export membrane protein; Region: SecD_SecF; cl14618 318167003730 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167003731 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 318167003732 HlyD family secretion protein; Region: HlyD_3; pfam13437 318167003733 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167003734 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318167003735 LPP20 lipoprotein; Region: LPP20; pfam02169 318167003736 Protein of unknown function (DUF2947); Region: DUF2947; pfam11163 318167003737 FlgN protein; Region: FlgN; pfam05130 318167003738 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 318167003739 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 318167003740 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 318167003741 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 318167003742 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 318167003743 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167003744 active site 318167003745 phosphorylation site [posttranslational modification] 318167003746 intermolecular recognition site; other site 318167003747 dimerization interface [polypeptide binding]; other site 318167003748 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 318167003749 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 318167003750 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 318167003751 S-adenosylmethionine binding site [chemical binding]; other site 318167003752 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12625 318167003753 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 318167003754 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 318167003755 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 318167003756 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 318167003757 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 318167003758 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12634 318167003759 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 318167003760 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 318167003761 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 318167003762 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 318167003763 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 318167003764 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 318167003765 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 318167003766 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 318167003767 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 318167003768 Flagellar L-ring protein; Region: FlgH; pfam02107 318167003769 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 318167003770 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 318167003771 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 318167003772 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 318167003773 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 318167003774 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 318167003775 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 318167003776 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 318167003777 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 318167003778 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 318167003779 flagellin; Provisional; Region: PRK12806 318167003780 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 318167003781 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 318167003782 flagellin; Provisional; Region: PRK12806 318167003783 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 318167003784 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 318167003785 FlaG protein; Region: FlaG; pfam03646 318167003786 flagellar capping protein; Reviewed; Region: fliD; PRK08032 318167003787 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 318167003788 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 318167003789 flagellar protein FliS; Validated; Region: fliS; PRK05685 318167003790 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318167003791 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 318167003792 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 318167003793 Walker A motif; other site 318167003794 ATP binding site [chemical binding]; other site 318167003795 Walker B motif; other site 318167003796 arginine finger; other site 318167003797 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318167003798 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318167003799 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 318167003800 putative active site [active] 318167003801 heme pocket [chemical binding]; other site 318167003802 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 318167003803 dimer interface [polypeptide binding]; other site 318167003804 phosphorylation site [posttranslational modification] 318167003805 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 318167003806 ATP binding site [chemical binding]; other site 318167003807 Mg2+ binding site [ion binding]; other site 318167003808 G-X-G motif; other site 318167003809 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318167003810 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167003811 active site 318167003812 phosphorylation site [posttranslational modification] 318167003813 intermolecular recognition site; other site 318167003814 dimerization interface [polypeptide binding]; other site 318167003815 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 318167003816 Walker A motif; other site 318167003817 ATP binding site [chemical binding]; other site 318167003818 Walker B motif; other site 318167003819 arginine finger; other site 318167003820 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318167003821 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 318167003822 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 318167003823 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 318167003824 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 318167003825 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 318167003826 MgtE intracellular N domain; Region: MgtE_N; smart00924 318167003827 FliG C-terminal domain; Region: FliG_C; pfam01706 318167003828 flagellar assembly protein H; Validated; Region: fliH; PRK05687 318167003829 Flagellar assembly protein FliH; Region: FliH; pfam02108 318167003830 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 318167003831 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 318167003832 Walker A motif/ATP binding site; other site 318167003833 Walker B motif; other site 318167003834 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 318167003835 Flagellar FliJ protein; Region: FliJ; pfam02050 318167003836 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 318167003837 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 318167003838 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 318167003839 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 318167003840 flagellar motor switch protein; Validated; Region: fliN; PRK08983 318167003841 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 318167003842 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 318167003843 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 318167003844 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 318167003845 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 318167003846 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 318167003847 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 318167003848 FHIPEP family; Region: FHIPEP; pfam00771 318167003849 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 318167003850 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 318167003851 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 318167003852 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 318167003853 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 318167003854 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 318167003855 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 318167003856 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167003857 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 318167003858 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 318167003859 DNA binding residues [nucleotide binding] 318167003860 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 318167003861 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167003862 active site 318167003863 phosphorylation site [posttranslational modification] 318167003864 intermolecular recognition site; other site 318167003865 dimerization interface [polypeptide binding]; other site 318167003866 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 318167003867 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 318167003868 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 318167003869 putative binding surface; other site 318167003870 active site 318167003871 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 318167003872 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 318167003873 ATP binding site [chemical binding]; other site 318167003874 Mg2+ binding site [ion binding]; other site 318167003875 G-X-G motif; other site 318167003876 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 318167003877 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 318167003878 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167003879 active site 318167003880 phosphorylation site [posttranslational modification] 318167003881 intermolecular recognition site; other site 318167003882 dimerization interface [polypeptide binding]; other site 318167003883 CheB methylesterase; Region: CheB_methylest; pfam01339 318167003884 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 318167003885 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 318167003886 P loop; other site 318167003887 Nucleotide binding site [chemical binding]; other site 318167003888 DTAP/Switch II; other site 318167003889 Switch I; other site 318167003890 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 318167003891 Magnesium ion binding site [ion binding]; other site 318167003892 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 318167003893 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 318167003894 putative CheA interaction surface; other site 318167003895 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 318167003896 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 318167003897 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 318167003898 S-adenosylmethionine binding site [chemical binding]; other site 318167003899 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 318167003900 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 318167003901 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 318167003902 RimK-like ATP-grasp domain; Region: RimK; pfam08443 318167003903 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 318167003904 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 318167003905 putative active site [active] 318167003906 Zn binding site [ion binding]; other site 318167003907 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 318167003908 PAS fold; Region: PAS_3; pfam08447 318167003909 putative active site [active] 318167003910 heme pocket [chemical binding]; other site 318167003911 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167003912 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167003913 dimer interface [polypeptide binding]; other site 318167003914 putative CheW interface [polypeptide binding]; other site 318167003915 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 318167003916 dimerization interface [polypeptide binding]; other site 318167003917 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167003918 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167003919 dimer interface [polypeptide binding]; other site 318167003920 putative CheW interface [polypeptide binding]; other site 318167003921 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 318167003922 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 318167003923 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 318167003924 FMN binding site [chemical binding]; other site 318167003925 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 318167003926 substrate binding site [chemical binding]; other site 318167003927 putative catalytic residue [active] 318167003928 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 318167003929 3-oxoacyl-acyl carrier protein synthase; Provisional; Region: PTZ00050 318167003930 active site 318167003931 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 318167003932 active site 318167003933 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 318167003934 active site 2 [active] 318167003935 dimer interface [polypeptide binding]; other site 318167003936 active site 1 [active] 318167003937 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 318167003938 active site 2 [active] 318167003939 active site 1 [active] 318167003940 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 318167003941 active site 1 [active] 318167003942 dimer interface [polypeptide binding]; other site 318167003943 active site 2 [active] 318167003944 Acyl transferase domain; Region: Acyl_transf_1; cl08282 318167003945 polyketide-type polyunsaturated fatty acid synthase PfaA; Region: omega_3_PfaA; TIGR02813 318167003946 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 318167003947 active site 318167003948 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 318167003949 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 318167003950 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 318167003951 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 318167003952 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 318167003953 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 318167003954 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 318167003955 putative NADP binding site [chemical binding]; other site 318167003956 active site 318167003957 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 318167003958 Homeodomain-like domain; Region: HTH_23; pfam13384 318167003959 Winged helix-turn helix; Region: HTH_29; pfam13551 318167003960 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 318167003961 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 318167003962 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 318167003963 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 318167003964 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 318167003965 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 318167003966 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 318167003967 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 318167003968 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 318167003969 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 318167003970 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 318167003971 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 318167003972 catalytic residues [active] 318167003973 Bacterial SH3 domain; Region: SH3_3; pfam08239 318167003974 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 318167003975 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 318167003976 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 318167003977 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 318167003978 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 318167003979 ApbE family; Region: ApbE; pfam02424 318167003980 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 318167003981 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 318167003982 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 318167003983 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 318167003984 SCP-2 sterol transfer family; Region: SCP2; pfam02036 318167003985 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 318167003986 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167003987 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 318167003988 putative substrate binding pocket [chemical binding]; other site 318167003989 putative dimerization interface [polypeptide binding]; other site 318167003990 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 318167003991 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 318167003992 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 318167003993 SecY interacting protein Syd; Provisional; Region: PRK04968 318167003994 Part of AAA domain; Region: AAA_19; pfam13245 318167003995 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 318167003996 AAA domain; Region: AAA_12; pfam13087 318167003997 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 318167003998 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 318167003999 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 318167004000 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167004001 Coenzyme A binding pocket [chemical binding]; other site 318167004002 Protein of unknown function (DUF962); Region: DUF962; pfam06127 318167004003 putative oxidoreductase; Provisional; Region: PRK11579 318167004004 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 318167004005 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 318167004006 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 318167004007 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 318167004008 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 318167004009 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 318167004010 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 318167004011 probable active site [active] 318167004012 flavodoxin; Provisional; Region: PRK08105 318167004013 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 318167004014 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 318167004015 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 318167004016 active site turn [active] 318167004017 phosphorylation site [posttranslational modification] 318167004018 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 318167004019 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 318167004020 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 318167004021 putative active site [active] 318167004022 putative substrate binding site [chemical binding]; other site 318167004023 putative cosubstrate binding site; other site 318167004024 catalytic site [active] 318167004025 GAF domain; Region: GAF_2; pfam13185 318167004026 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 318167004027 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 318167004028 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318167004029 Zn2+ binding site [ion binding]; other site 318167004030 Mg2+ binding site [ion binding]; other site 318167004031 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 318167004032 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 318167004033 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 318167004034 trimer interface [polypeptide binding]; other site 318167004035 active site 318167004036 substrate binding site [chemical binding]; other site 318167004037 CoA binding site [chemical binding]; other site 318167004038 PII uridylyl-transferase; Provisional; Region: PRK05007 318167004039 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 318167004040 metal binding triad; other site 318167004041 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 318167004042 HD domain; Region: HD; pfam01966 318167004043 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 318167004044 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 318167004045 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 318167004046 active site 318167004047 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 318167004048 rRNA interaction site [nucleotide binding]; other site 318167004049 S8 interaction site; other site 318167004050 putative laminin-1 binding site; other site 318167004051 elongation factor Ts; Provisional; Region: tsf; PRK09377 318167004052 UBA/TS-N domain; Region: UBA; pfam00627 318167004053 Elongation factor TS; Region: EF_TS; pfam00889 318167004054 Elongation factor TS; Region: EF_TS; pfam00889 318167004055 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 318167004056 putative nucleotide binding site [chemical binding]; other site 318167004057 uridine monophosphate binding site [chemical binding]; other site 318167004058 homohexameric interface [polypeptide binding]; other site 318167004059 ribosome recycling factor; Reviewed; Region: frr; PRK00083 318167004060 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 318167004061 hinge region; other site 318167004062 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 318167004063 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 318167004064 catalytic residue [active] 318167004065 putative FPP diphosphate binding site; other site 318167004066 putative FPP binding hydrophobic cleft; other site 318167004067 dimer interface [polypeptide binding]; other site 318167004068 putative IPP diphosphate binding site; other site 318167004069 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 318167004070 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 318167004071 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 318167004072 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 318167004073 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 318167004074 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 318167004075 zinc metallopeptidase RseP; Provisional; Region: PRK10779 318167004076 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 318167004077 active site 318167004078 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 318167004079 protein binding site [polypeptide binding]; other site 318167004080 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 318167004081 protein binding site [polypeptide binding]; other site 318167004082 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 318167004083 putative substrate binding region [chemical binding]; other site 318167004084 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 318167004085 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 318167004086 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 318167004087 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 318167004088 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 318167004089 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 318167004090 Surface antigen; Region: Bac_surface_Ag; pfam01103 318167004091 periplasmic chaperone; Provisional; Region: PRK10780 318167004092 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 318167004093 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 318167004094 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 318167004095 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 318167004096 trimer interface [polypeptide binding]; other site 318167004097 active site 318167004098 UDP-GlcNAc binding site [chemical binding]; other site 318167004099 lipid binding site [chemical binding]; lipid-binding site 318167004100 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 318167004101 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 318167004102 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 318167004103 active site 318167004104 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 318167004105 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 318167004106 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 318167004107 RNA/DNA hybrid binding site [nucleotide binding]; other site 318167004108 active site 318167004109 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 318167004110 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 318167004111 putative active site [active] 318167004112 putative PHP Thumb interface [polypeptide binding]; other site 318167004113 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 318167004114 generic binding surface II; other site 318167004115 generic binding surface I; other site 318167004116 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 318167004117 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 318167004118 Ligand Binding Site [chemical binding]; other site 318167004119 TilS substrate binding domain; Region: TilS; pfam09179 318167004120 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 318167004121 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 318167004122 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 318167004123 PA/protease or protease-like domain interface [polypeptide binding]; other site 318167004124 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 318167004125 Peptidase family M28; Region: Peptidase_M28; pfam04389 318167004126 metal binding site [ion binding]; metal-binding site 318167004127 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 318167004128 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318167004129 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318167004130 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318167004131 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 318167004132 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167004133 Coenzyme A binding pocket [chemical binding]; other site 318167004134 Peptidase_C39 like family; Region: DUF3335; pfam11814 318167004135 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 318167004136 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 318167004137 ATP-grasp domain; Region: ATP-grasp_4; cl17255 318167004138 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167004139 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167004140 metal binding site [ion binding]; metal-binding site 318167004141 active site 318167004142 I-site; other site 318167004143 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 318167004144 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 318167004145 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 318167004146 TrkA-N domain; Region: TrkA_N; pfam02254 318167004147 TrkA-C domain; Region: TrkA_C; pfam02080 318167004148 RNA polymerase sigma factor; Provisional; Region: PRK12514 318167004149 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167004150 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 318167004151 DNA binding residues [nucleotide binding] 318167004152 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 318167004153 Anti-sigma-K factor rskA; Region: RskA; pfam10099 318167004154 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 318167004155 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 318167004156 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 318167004157 TPR repeat; Region: TPR_11; pfam13414 318167004158 binding surface 318167004159 TPR motif; other site 318167004160 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 318167004161 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 318167004162 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 318167004163 ATP binding site [chemical binding]; other site 318167004164 putative Mg++ binding site [ion binding]; other site 318167004165 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 318167004166 nucleotide binding region [chemical binding]; other site 318167004167 ATP-binding site [chemical binding]; other site 318167004168 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 318167004169 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 318167004170 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 318167004171 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 318167004172 Ligand binding site; other site 318167004173 DXD motif; other site 318167004174 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 318167004175 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 318167004176 active site 318167004177 FMN binding site [chemical binding]; other site 318167004178 substrate binding site [chemical binding]; other site 318167004179 putative catalytic residue [active] 318167004180 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 318167004181 DTW domain; Region: DTW; cl01221 318167004182 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 318167004183 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 318167004184 PA14 domain; Region: PA14; cl08459 318167004185 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 318167004186 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 318167004187 Cupin-like domain; Region: Cupin_8; pfam13621 318167004188 SapC; Region: SapC; pfam07277 318167004189 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 318167004190 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 318167004191 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167004192 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167004193 Transcriptional regulators [Transcription]; Region: PurR; COG1609 318167004194 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 318167004195 DNA binding site [nucleotide binding] 318167004196 domain linker motif; other site 318167004197 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 318167004198 dimerization interface (closed form) [polypeptide binding]; other site 318167004199 ligand binding site [chemical binding]; other site 318167004200 putative symporter YagG; Provisional; Region: PRK09669 318167004201 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 318167004202 putative substrate translocation pore; other site 318167004203 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 318167004204 beta-galactosidase; Region: BGL; TIGR03356 318167004205 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 318167004206 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 318167004207 putative substrate translocation pore; other site 318167004208 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 318167004209 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 318167004210 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 318167004211 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 318167004212 active site 318167004213 catalytic residues [active] 318167004214 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 318167004215 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 318167004216 active site 318167004217 fructokinase; Reviewed; Region: PRK09557 318167004218 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 318167004219 nucleotide binding site [chemical binding]; other site 318167004220 Acetokinase family; Region: Acetate_kinase; cl17229 318167004221 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 318167004222 putative active site [active] 318167004223 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 318167004224 Uncharacterized conserved protein [Function unknown]; Region: COG3791 318167004225 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 318167004226 ferredoxin-type protein; Provisional; Region: PRK10194 318167004227 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 318167004228 4Fe-4S binding domain; Region: Fer4; pfam00037 318167004229 UDP-glucose 4-epimerase; Region: PLN02240 318167004230 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 318167004231 NAD binding site [chemical binding]; other site 318167004232 homodimer interface [polypeptide binding]; other site 318167004233 active site 318167004234 substrate binding site [chemical binding]; other site 318167004235 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 318167004236 cofactor binding site; other site 318167004237 metal binding site [ion binding]; metal-binding site 318167004238 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 318167004239 aromatic arch; other site 318167004240 DCoH dimer interaction site [polypeptide binding]; other site 318167004241 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 318167004242 DCoH tetramer interaction site [polypeptide binding]; other site 318167004243 substrate binding site [chemical binding]; other site 318167004244 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 318167004245 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 318167004246 putative aromatic amino acid binding site; other site 318167004247 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 318167004248 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 318167004249 Walker A motif; other site 318167004250 ATP binding site [chemical binding]; other site 318167004251 Walker B motif; other site 318167004252 arginine finger; other site 318167004253 GIYX(10-11)YIG family of class I homing endonucleases C-terminus (GIY-YIG_Cterm). Homing endonucleases promote the mobility of intron or intein by recognizing and cleaving a homologous allele that lacks the sequence. They catalyze a double-strand break...; Region: GIY-YIG_Cterm; cl11508 318167004254 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 318167004255 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 318167004256 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 318167004257 maleylacetoacetate isomerase; Region: maiA; TIGR01262 318167004258 C-terminal domain interface [polypeptide binding]; other site 318167004259 GSH binding site (G-site) [chemical binding]; other site 318167004260 putative dimer interface [polypeptide binding]; other site 318167004261 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 318167004262 dimer interface [polypeptide binding]; other site 318167004263 N-terminal domain interface [polypeptide binding]; other site 318167004264 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 318167004265 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 318167004266 outer membrane protein W; Provisional; Region: PRK10959 318167004267 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167004268 NAD(P) binding site [chemical binding]; other site 318167004269 active site 318167004270 homoserine O-succinyltransferase; Provisional; Region: PRK05368 318167004271 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 318167004272 proposed active site lysine [active] 318167004273 conserved cys residue [active] 318167004274 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167004275 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167004276 metal binding site [ion binding]; metal-binding site 318167004277 active site 318167004278 I-site; other site 318167004279 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 318167004280 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 318167004281 dimer interface [polypeptide binding]; other site 318167004282 active site 318167004283 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 318167004284 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 318167004285 tetrameric interface [polypeptide binding]; other site 318167004286 NAD binding site [chemical binding]; other site 318167004287 catalytic residues [active] 318167004288 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 318167004289 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318167004290 active site 318167004291 enoyl-CoA hydratase; Provisional; Region: PRK09076 318167004292 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 318167004293 substrate binding site [chemical binding]; other site 318167004294 oxyanion hole (OAH) forming residues; other site 318167004295 trimer interface [polypeptide binding]; other site 318167004296 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 318167004297 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 318167004298 substrate binding site [chemical binding]; other site 318167004299 oxyanion hole (OAH) forming residues; other site 318167004300 trimer interface [polypeptide binding]; other site 318167004301 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 318167004302 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 318167004303 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 318167004304 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 318167004305 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167004306 NAD(P) binding site [chemical binding]; other site 318167004307 active site 318167004308 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 318167004309 EamA-like transporter family; Region: EamA; pfam00892 318167004310 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 318167004311 putative active site [active] 318167004312 Zn binding site [ion binding]; other site 318167004313 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 318167004314 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318167004315 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318167004316 Walker A/P-loop; other site 318167004317 ATP binding site [chemical binding]; other site 318167004318 ABC transporter signature motif; other site 318167004319 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318167004320 Walker B; other site 318167004321 ABC transporter; Region: ABC_tran_2; pfam12848 318167004322 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318167004323 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167004324 Nitrate and nitrite sensing; Region: NIT; pfam08376 318167004325 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 318167004326 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167004327 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167004328 dimer interface [polypeptide binding]; other site 318167004329 putative CheW interface [polypeptide binding]; other site 318167004330 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 318167004331 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 318167004332 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 318167004333 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 318167004334 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 318167004335 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 318167004336 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 318167004337 Utp8 family; Region: Utp8; pfam10395 318167004338 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 318167004339 conserved gate region; other site 318167004340 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 318167004341 ABC-ATPase subunit interface; other site 318167004342 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 318167004343 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 318167004344 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 318167004345 dimer interface [polypeptide binding]; other site 318167004346 conserved gate region; other site 318167004347 putative PBP binding loops; other site 318167004348 ABC-ATPase subunit interface; other site 318167004349 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 318167004350 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 318167004351 Walker A/P-loop; other site 318167004352 ATP binding site [chemical binding]; other site 318167004353 Q-loop/lid; other site 318167004354 ABC transporter signature motif; other site 318167004355 Walker B; other site 318167004356 D-loop; other site 318167004357 H-loop/switch region; other site 318167004358 transcriptional regulator PhoU; Provisional; Region: PRK11115 318167004359 PhoU domain; Region: PhoU; pfam01895 318167004360 PhoU domain; Region: PhoU; pfam01895 318167004361 Protein of unknown function (DUF502); Region: DUF502; pfam04367 318167004362 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 318167004363 active site 318167004364 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 318167004365 Methyltransferase domain; Region: Methyltransf_32; pfam13679 318167004366 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 318167004367 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 318167004368 dimer interface [polypeptide binding]; other site 318167004369 active site 318167004370 CoA binding pocket [chemical binding]; other site 318167004371 haloalkane dehalogenase; Provisional; Region: PRK03592 318167004372 peptide synthase; Provisional; Region: PRK09274 318167004373 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 318167004374 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 318167004375 acyl-activating enzyme (AAE) consensus motif; other site 318167004376 putative AMP binding site [chemical binding]; other site 318167004377 putative active site [active] 318167004378 putative CoA binding site [chemical binding]; other site 318167004379 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167004380 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 318167004381 NAD(P) binding site [chemical binding]; other site 318167004382 active site 318167004383 methionine gamma-lyase; Provisional; Region: PRK06234 318167004384 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 318167004385 homodimer interface [polypeptide binding]; other site 318167004386 substrate-cofactor binding pocket; other site 318167004387 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167004388 catalytic residue [active] 318167004389 HAMP domain; Region: HAMP; pfam00672 318167004390 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167004391 metal binding site [ion binding]; metal-binding site 318167004392 active site 318167004393 I-site; other site 318167004394 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 318167004395 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 318167004396 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 318167004397 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 318167004398 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 318167004399 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 318167004400 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 318167004401 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 318167004402 putative NAD(P) binding site [chemical binding]; other site 318167004403 active site 318167004404 putative substrate binding site [chemical binding]; other site 318167004405 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 318167004406 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 318167004407 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 318167004408 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 318167004409 putative ADP-binding pocket [chemical binding]; other site 318167004410 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 318167004411 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 318167004412 putative ADP-binding pocket [chemical binding]; other site 318167004413 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 318167004414 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 318167004415 active site 318167004416 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 318167004417 colanic acid exporter; Provisional; Region: PRK10459 318167004418 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 318167004419 Bacterial sugar transferase; Region: Bac_transf; pfam02397 318167004420 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 318167004421 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 318167004422 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 318167004423 SLBB domain; Region: SLBB; pfam10531 318167004424 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 318167004425 Chain length determinant protein; Region: Wzz; pfam02706 318167004426 Serine rich Four helix bundle domain of CAS (Crk-Associated Substrate) scaffolding proteins; a protein interaction module; Region: Serine_rich_CAS; cl07433 318167004427 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 318167004428 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 318167004429 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 318167004430 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 318167004431 O-Antigen ligase; Region: Wzy_C; pfam04932 318167004432 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 318167004433 active site 318167004434 tetramer interface; other site 318167004435 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 318167004436 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 318167004437 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 318167004438 dimer interface [polypeptide binding]; other site 318167004439 active site 318167004440 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 318167004441 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 318167004442 ligand binding site [chemical binding]; other site 318167004443 NAD binding site [chemical binding]; other site 318167004444 catalytic site [active] 318167004445 homodimer interface [polypeptide binding]; other site 318167004446 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 318167004447 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 318167004448 FimV N-terminal domain; Region: FimV_core; TIGR03505 318167004449 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 318167004450 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 318167004451 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 318167004452 dimerization interface 3.5A [polypeptide binding]; other site 318167004453 active site 318167004454 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 318167004455 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318167004456 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318167004457 cell division protein DedD; Provisional; Region: PRK11633 318167004458 Sporulation related domain; Region: SPOR; pfam05036 318167004459 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 318167004460 Colicin V production protein; Region: Colicin_V; cl00567 318167004461 amidophosphoribosyltransferase; Provisional; Region: PRK09246 318167004462 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 318167004463 active site 318167004464 tetramer interface [polypeptide binding]; other site 318167004465 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318167004466 active site 318167004467 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 318167004468 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 318167004469 S-adenosylmethionine binding site [chemical binding]; other site 318167004470 Family of unknown function (DUF633); Region: DUF633; pfam04816 318167004471 DNA topoisomerase III; Provisional; Region: PRK07726 318167004472 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 318167004473 active site 318167004474 putative interdomain interaction site [polypeptide binding]; other site 318167004475 putative metal-binding site [ion binding]; other site 318167004476 putative nucleotide binding site [chemical binding]; other site 318167004477 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 318167004478 domain I; other site 318167004479 DNA binding groove [nucleotide binding] 318167004480 phosphate binding site [ion binding]; other site 318167004481 domain II; other site 318167004482 domain III; other site 318167004483 nucleotide binding site [chemical binding]; other site 318167004484 catalytic site [active] 318167004485 domain IV; other site 318167004486 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 318167004487 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167004488 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167004489 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 318167004490 putative effector binding pocket; other site 318167004491 dimerization interface [polypeptide binding]; other site 318167004492 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 318167004493 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 318167004494 putative NAD(P) binding site [chemical binding]; other site 318167004495 dimer interface [polypeptide binding]; other site 318167004496 Uncharacterized conserved protein [Function unknown]; Region: COG1359 318167004497 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 318167004498 ABC transporter signature motif; other site 318167004499 Walker B; other site 318167004500 D-loop; other site 318167004501 H-loop/switch region; other site 318167004502 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318167004503 Walker A/P-loop; other site 318167004504 ATP binding site [chemical binding]; other site 318167004505 ABC transporter; Region: ABC_tran; pfam00005 318167004506 Q-loop/lid; other site 318167004507 ABC transporter signature motif; other site 318167004508 Walker B; other site 318167004509 D-loop; other site 318167004510 H-loop/switch region; other site 318167004511 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 318167004512 putative catalytic residue [active] 318167004513 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 318167004514 dimer interface [polypeptide binding]; other site 318167004515 FMN binding site [chemical binding]; other site 318167004516 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 318167004517 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 318167004518 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 318167004519 XdhC Rossmann domain; Region: XdhC_C; pfam13478 318167004520 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 318167004521 Ligand binding site; other site 318167004522 metal-binding site 318167004523 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 318167004524 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 318167004525 catalytic loop [active] 318167004526 iron binding site [ion binding]; other site 318167004527 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 318167004528 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 318167004529 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318167004530 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 318167004531 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318167004532 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318167004533 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 318167004534 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167004535 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167004536 dimer interface [polypeptide binding]; other site 318167004537 putative CheW interface [polypeptide binding]; other site 318167004538 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 318167004539 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 318167004540 dimerization interface [polypeptide binding]; other site 318167004541 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167004542 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167004543 metal binding site [ion binding]; metal-binding site 318167004544 active site 318167004545 I-site; other site 318167004546 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 318167004547 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 318167004548 putative catalytic site [active] 318167004549 putative phosphate binding site [ion binding]; other site 318167004550 active site 318167004551 metal binding site A [ion binding]; metal-binding site 318167004552 DNA binding site [nucleotide binding] 318167004553 putative AP binding site [nucleotide binding]; other site 318167004554 putative metal binding site B [ion binding]; other site 318167004555 YciI-like protein; Reviewed; Region: PRK11370 318167004556 intracellular septation protein A; Reviewed; Region: PRK00259 318167004557 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318167004558 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 318167004559 substrate binding site [chemical binding]; other site 318167004560 active site 318167004561 catalytic residues [active] 318167004562 heterodimer interface [polypeptide binding]; other site 318167004563 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 318167004564 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 318167004565 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167004566 catalytic residue [active] 318167004567 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 318167004568 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 318167004569 active site 318167004570 ribulose/triose binding site [chemical binding]; other site 318167004571 phosphate binding site [ion binding]; other site 318167004572 substrate (anthranilate) binding pocket [chemical binding]; other site 318167004573 product (indole) binding pocket [chemical binding]; other site 318167004574 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 318167004575 active site 318167004576 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 318167004577 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 318167004578 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 318167004579 Glutamine amidotransferase class-I; Region: GATase; pfam00117 318167004580 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 318167004581 glutamine binding [chemical binding]; other site 318167004582 catalytic triad [active] 318167004583 anthranilate synthase component I; Provisional; Region: PRK13564 318167004584 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 318167004585 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 318167004586 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 318167004587 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 318167004588 active site 318167004589 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 318167004590 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 318167004591 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 318167004592 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 318167004593 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167004594 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167004595 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 318167004596 putative effector binding pocket; other site 318167004597 dimerization interface [polypeptide binding]; other site 318167004598 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167004599 HlyD family secretion protein; Region: HlyD_3; pfam13437 318167004600 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318167004601 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 318167004602 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 318167004603 RNA binding surface [nucleotide binding]; other site 318167004604 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 318167004605 probable active site [active] 318167004606 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 318167004607 IHF dimer interface [polypeptide binding]; other site 318167004608 IHF - DNA interface [nucleotide binding]; other site 318167004609 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 318167004610 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 318167004611 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 318167004612 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 318167004613 Peptidase M15; Region: Peptidase_M15_3; cl01194 318167004614 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 318167004615 5S rRNA interface [nucleotide binding]; other site 318167004616 CTC domain interface [polypeptide binding]; other site 318167004617 L16 interface [polypeptide binding]; other site 318167004618 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 318167004619 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 318167004620 Family of unknown function (DUF490); Region: DUF490; pfam04357 318167004621 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 318167004622 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 318167004623 Surface antigen; Region: Bac_surface_Ag; pfam01103 318167004624 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 318167004625 catalytic nucleophile [active] 318167004626 FOG: CBS domain [General function prediction only]; Region: COG0517 318167004627 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 318167004628 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 318167004629 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 318167004630 ATP binding site [chemical binding]; other site 318167004631 putative Mg++ binding site [ion binding]; other site 318167004632 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 318167004633 nucleotide binding region [chemical binding]; other site 318167004634 ATP-binding site [chemical binding]; other site 318167004635 Helicase associated domain (HA2); Region: HA2; pfam04408 318167004636 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 318167004637 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 318167004638 Somatotropin/prolactin hormone family; Region: growth_hormone_like; cl07831 318167004639 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 318167004640 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167004641 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 318167004642 substrate binding site [chemical binding]; other site 318167004643 dimerization interface [polypeptide binding]; other site 318167004644 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 318167004645 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 318167004646 active site 318167004647 substrate binding site [chemical binding]; other site 318167004648 cosubstrate binding site; other site 318167004649 catalytic site [active] 318167004650 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 318167004651 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 318167004652 dimerization interface [polypeptide binding]; other site 318167004653 putative ATP binding site [chemical binding]; other site 318167004654 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318167004655 active site 318167004656 Predicted permease [General function prediction only]; Region: COG2056 318167004657 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 318167004658 peroxidase; Provisional; Region: PRK15000 318167004659 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 318167004660 dimer interface [polypeptide binding]; other site 318167004661 decamer (pentamer of dimers) interface [polypeptide binding]; other site 318167004662 catalytic triad [active] 318167004663 peroxidatic and resolving cysteines [active] 318167004664 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 318167004665 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 318167004666 dimer interface [polypeptide binding]; other site 318167004667 catalytic site [active] 318167004668 putative active site [active] 318167004669 putative substrate binding site [chemical binding]; other site 318167004670 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167004671 ligand binding site [chemical binding]; other site 318167004672 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 318167004673 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 318167004674 active site 318167004675 TolQ protein; Region: tolQ; TIGR02796 318167004676 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 318167004677 TolR protein; Region: tolR; TIGR02801 318167004678 TolA C-terminal; Region: TolA; pfam06519 318167004679 TolA protein; Region: tolA_full; TIGR02794 318167004680 translocation protein TolB; Provisional; Region: tolB; PRK04792 318167004681 TolB amino-terminal domain; Region: TolB_N; pfam04052 318167004682 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318167004683 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318167004684 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318167004685 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318167004686 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 318167004687 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167004688 ligand binding site [chemical binding]; other site 318167004689 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 318167004690 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 318167004691 binding surface 318167004692 TPR motif; other site 318167004693 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 318167004694 GSH binding site [chemical binding]; other site 318167004695 catalytic residues [active] 318167004696 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 318167004697 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 318167004698 ATP binding site [chemical binding]; other site 318167004699 putative Mg++ binding site [ion binding]; other site 318167004700 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 318167004701 nucleotide binding region [chemical binding]; other site 318167004702 ATP-binding site [chemical binding]; other site 318167004703 Double zinc ribbon; Region: DZR; pfam12773 318167004704 acetyl-CoA synthetase; Provisional; Region: PRK00174 318167004705 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 318167004706 active site 318167004707 CoA binding site [chemical binding]; other site 318167004708 acyl-activating enzyme (AAE) consensus motif; other site 318167004709 AMP binding site [chemical binding]; other site 318167004710 acetate binding site [chemical binding]; other site 318167004711 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 318167004712 Na binding site [ion binding]; other site 318167004713 PAS fold; Region: PAS_7; pfam12860 318167004714 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318167004715 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 318167004716 dimer interface [polypeptide binding]; other site 318167004717 phosphorylation site [posttranslational modification] 318167004718 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 318167004719 ATP binding site [chemical binding]; other site 318167004720 Mg2+ binding site [ion binding]; other site 318167004721 G-X-G motif; other site 318167004722 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 318167004723 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167004724 active site 318167004725 phosphorylation site [posttranslational modification] 318167004726 intermolecular recognition site; other site 318167004727 dimerization interface [polypeptide binding]; other site 318167004728 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 318167004729 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318167004730 putative C-terminal domain interface [polypeptide binding]; other site 318167004731 putative GSH binding site (G-site) [chemical binding]; other site 318167004732 putative dimer interface [polypeptide binding]; other site 318167004733 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318167004734 N-terminal domain interface [polypeptide binding]; other site 318167004735 Lysine efflux permease [General function prediction only]; Region: COG1279 318167004736 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 318167004737 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167004738 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 318167004739 putative dimerization interface [polypeptide binding]; other site 318167004740 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 318167004741 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 318167004742 inhibitor-cofactor binding pocket; inhibition site 318167004743 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167004744 catalytic residue [active] 318167004745 biotin synthase; Provisional; Region: PRK15108 318167004746 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 318167004747 FeS/SAM binding site; other site 318167004748 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 318167004749 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 318167004750 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 318167004751 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318167004752 catalytic residue [active] 318167004753 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 318167004754 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 318167004755 S-adenosylmethionine binding site [chemical binding]; other site 318167004756 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 318167004757 AAA domain; Region: AAA_26; pfam13500 318167004758 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167004759 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167004760 metal binding site [ion binding]; metal-binding site 318167004761 active site 318167004762 I-site; other site 318167004763 Protein of unknown function, DUF; Region: DUF413; pfam04219 318167004764 transcriptional regulator HdfR; Provisional; Region: PRK03601 318167004765 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167004766 LysR substrate binding domain; Region: LysR_substrate; pfam03466 318167004767 dimerization interface [polypeptide binding]; other site 318167004768 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 318167004769 DNA ligase; Provisional; Region: PRK09125 318167004770 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 318167004771 DNA binding site [nucleotide binding] 318167004772 active site 318167004773 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 318167004774 DNA binding site [nucleotide binding] 318167004775 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 318167004776 Low molecular weight phosphatase family; Region: LMWPc; cd00115 318167004777 active site 318167004778 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 318167004779 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 318167004780 GTP/Mg2+ binding site [chemical binding]; other site 318167004781 G4 box; other site 318167004782 G5 box; other site 318167004783 G1 box; other site 318167004784 Switch I region; other site 318167004785 G2 box; other site 318167004786 G3 box; other site 318167004787 Switch II region; other site 318167004788 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 318167004789 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 318167004790 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 318167004791 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 318167004792 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 318167004793 methionine sulfoxide reductase A; Provisional; Region: PRK14054 318167004794 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 318167004795 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 318167004796 homodimer interface [polypeptide binding]; other site 318167004797 oligonucleotide binding site [chemical binding]; other site 318167004798 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 318167004799 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 318167004800 RNA binding surface [nucleotide binding]; other site 318167004801 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 318167004802 active site 318167004803 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 318167004804 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 318167004805 motif II; other site 318167004806 Maf-like protein; Region: Maf; pfam02545 318167004807 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 318167004808 active site 318167004809 dimer interface [polypeptide binding]; other site 318167004810 hypothetical protein; Provisional; Region: PRK11193 318167004811 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 318167004812 putative phosphate acyltransferase; Provisional; Region: PRK05331 318167004813 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 318167004814 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 318167004815 dimer interface [polypeptide binding]; other site 318167004816 active site 318167004817 CoA binding pocket [chemical binding]; other site 318167004818 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 318167004819 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 318167004820 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 318167004821 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 318167004822 NAD(P) binding site [chemical binding]; other site 318167004823 homotetramer interface [polypeptide binding]; other site 318167004824 homodimer interface [polypeptide binding]; other site 318167004825 active site 318167004826 acyl carrier protein; Provisional; Region: acpP; PRK00982 318167004827 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 318167004828 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 318167004829 dimer interface [polypeptide binding]; other site 318167004830 active site 318167004831 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 318167004832 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 318167004833 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 318167004834 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 318167004835 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 318167004836 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 318167004837 [4Fe-4S] binding site [ion binding]; other site 318167004838 molybdopterin cofactor binding site; other site 318167004839 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 318167004840 molybdopterin cofactor binding site; other site 318167004841 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 318167004842 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 318167004843 active site 318167004844 SAM binding site [chemical binding]; other site 318167004845 homodimer interface [polypeptide binding]; other site 318167004846 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 318167004847 hypothetical protein; Validated; Region: PRK09071 318167004848 ANTAR domain; Region: ANTAR; pfam03861 318167004849 nitrite reductase subunit NirD; Provisional; Region: PRK14989 318167004850 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 318167004851 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167004852 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 318167004853 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 318167004854 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 318167004855 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 318167004856 putative substrate translocation pore; other site 318167004857 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 318167004858 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 318167004859 active site 318167004860 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 318167004861 Catalytic domain of Protein Kinases; Region: PKc; cd00180 318167004862 active site 318167004863 ATP binding site [chemical binding]; other site 318167004864 substrate binding site [chemical binding]; other site 318167004865 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318167004866 substrate binding site [chemical binding]; other site 318167004867 activation loop (A-loop); other site 318167004868 activation loop (A-loop); other site 318167004869 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 318167004870 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 318167004871 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 318167004872 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 318167004873 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 318167004874 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 318167004875 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 318167004876 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 318167004877 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 318167004878 DNA binding residues [nucleotide binding] 318167004879 dimerization interface [polypeptide binding]; other site 318167004880 Curli assembly protein CsgE; Region: CsgE; pfam10627 318167004881 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 318167004882 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 318167004883 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 318167004884 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 318167004885 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 318167004886 protein binding site [polypeptide binding]; other site 318167004887 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 318167004888 nucleotide binding site/active site [active] 318167004889 HIT family signature motif; other site 318167004890 catalytic residue [active] 318167004891 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 318167004892 CoenzymeA binding site [chemical binding]; other site 318167004893 subunit interaction site [polypeptide binding]; other site 318167004894 PHB binding site; other site 318167004895 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 318167004896 CoenzymeA binding site [chemical binding]; other site 318167004897 subunit interaction site [polypeptide binding]; other site 318167004898 PHB binding site; other site 318167004899 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 318167004900 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 318167004901 putative dimer interface [polypeptide binding]; other site 318167004902 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318167004903 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 318167004904 N-terminal plug; other site 318167004905 ligand-binding site [chemical binding]; other site 318167004906 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 318167004907 Phosphotransferase enzyme family; Region: APH; pfam01636 318167004908 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 318167004909 active site 318167004910 ATP binding site [chemical binding]; other site 318167004911 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 318167004912 substrate binding site [chemical binding]; other site 318167004913 DoxX; Region: DoxX; pfam07681 318167004914 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 318167004915 putative FMN binding site [chemical binding]; other site 318167004916 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 318167004917 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318167004918 putative GSH binding site (G-site) [chemical binding]; other site 318167004919 active site cysteine [active] 318167004920 putative C-terminal domain interface [polypeptide binding]; other site 318167004921 putative dimer interface [polypeptide binding]; other site 318167004922 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 318167004923 putative N-terminal domain interface [polypeptide binding]; other site 318167004924 putative dimer interface [polypeptide binding]; other site 318167004925 putative substrate binding pocket (H-site) [chemical binding]; other site 318167004926 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 318167004927 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 318167004928 active site residue [active] 318167004929 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167004930 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167004931 metal binding site [ion binding]; metal-binding site 318167004932 active site 318167004933 I-site; other site 318167004934 recombination protein RecR; Reviewed; Region: recR; PRK00076 318167004935 RecR protein; Region: RecR; pfam02132 318167004936 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 318167004937 putative active site [active] 318167004938 putative metal-binding site [ion binding]; other site 318167004939 tetramer interface [polypeptide binding]; other site 318167004940 heat shock protein 90; Provisional; Region: PRK05218 318167004941 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 318167004942 ATP binding site [chemical binding]; other site 318167004943 Mg2+ binding site [ion binding]; other site 318167004944 G-X-G motif; other site 318167004945 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 318167004946 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 318167004947 adenylate kinase; Reviewed; Region: adk; PRK00279 318167004948 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 318167004949 AMP-binding site [chemical binding]; other site 318167004950 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 318167004951 inosine/guanosine kinase; Provisional; Region: PRK15074 318167004952 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 318167004953 substrate binding site [chemical binding]; other site 318167004954 ATP binding site [chemical binding]; other site 318167004955 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 318167004956 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 318167004957 homodimer interface [polypeptide binding]; other site 318167004958 NAD binding pocket [chemical binding]; other site 318167004959 ATP binding pocket [chemical binding]; other site 318167004960 Mg binding site [ion binding]; other site 318167004961 active-site loop [active] 318167004962 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167004963 Thiamine-precursor transporter protein (ThiW); Region: ThiW; cl01952 318167004964 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167004965 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167004966 metal binding site [ion binding]; metal-binding site 318167004967 active site 318167004968 I-site; other site 318167004969 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 318167004970 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 318167004971 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 318167004972 Na binding site [ion binding]; other site 318167004973 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 318167004974 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 318167004975 ligand binding site [chemical binding]; other site 318167004976 flexible hinge region; other site 318167004977 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 318167004978 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 318167004979 metal binding triad; other site 318167004980 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 318167004981 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 318167004982 active site 318167004983 catalytic site [active] 318167004984 substrate binding site [chemical binding]; other site 318167004985 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 318167004986 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 318167004987 dimer interface [polypeptide binding]; other site 318167004988 active site 318167004989 CoA binding pocket [chemical binding]; other site 318167004990 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318167004991 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318167004992 DNA-binding site [nucleotide binding]; DNA binding site 318167004993 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 318167004994 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 318167004995 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 318167004996 active site 318167004997 motif I; other site 318167004998 motif II; other site 318167004999 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 318167005000 Winged helix-turn helix; Region: HTH_29; pfam13551 318167005001 Helix-turn-helix domain; Region: HTH_28; pfam13518 318167005002 Homeodomain-like domain; Region: HTH_32; pfam13565 318167005003 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 318167005004 Integrase core domain; Region: rve; pfam00665 318167005005 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 318167005006 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 318167005007 Walker A motif; other site 318167005008 ATP binding site [chemical binding]; other site 318167005009 Walker B motif; other site 318167005010 Winged helix-turn helix; Region: HTH_33; pfam13592 318167005011 DDE superfamily endonuclease; Region: DDE_3; pfam13358 318167005012 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 318167005013 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 318167005014 Homeodomain-like domain; Region: HTH_23; pfam13384 318167005015 Winged helix-turn helix; Region: HTH_33; pfam13592 318167005016 DDE superfamily endonuclease; Region: DDE_3; pfam13358 318167005017 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 318167005018 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 318167005019 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 318167005020 HlyD family secretion protein; Region: HlyD_3; pfam13437 318167005021 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 318167005022 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 318167005023 Walker A/P-loop; other site 318167005024 ATP binding site [chemical binding]; other site 318167005025 Q-loop/lid; other site 318167005026 ABC transporter signature motif; other site 318167005027 Walker B; other site 318167005028 D-loop; other site 318167005029 H-loop/switch region; other site 318167005030 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 318167005031 Walker A/P-loop; other site 318167005032 ATP binding site [chemical binding]; other site 318167005033 Q-loop/lid; other site 318167005034 ABC transporter signature motif; other site 318167005035 Walker B; other site 318167005036 D-loop; other site 318167005037 H-loop/switch region; other site 318167005038 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 318167005039 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 318167005040 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 318167005041 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 318167005042 phage shock protein C; Region: phageshock_pspC; TIGR02978 318167005043 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 318167005044 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 318167005045 putative dimer interface [polypeptide binding]; other site 318167005046 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 318167005047 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 318167005048 DNA binding residues [nucleotide binding] 318167005049 dimer interface [polypeptide binding]; other site 318167005050 [2Fe-2S] cluster binding site [ion binding]; other site 318167005051 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167005052 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 318167005053 active site 318167005054 metal binding site [ion binding]; metal-binding site 318167005055 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 318167005056 active site pocket [active] 318167005057 oxyanion hole [active] 318167005058 catalytic triad [active] 318167005059 active site nucleophile [active] 318167005060 heat shock protein HtpX; Provisional; Region: PRK05457 318167005061 PAS domain; Region: PAS_9; pfam13426 318167005062 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 318167005063 PAS domain; Region: PAS_9; pfam13426 318167005064 putative active site [active] 318167005065 heme pocket [chemical binding]; other site 318167005066 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167005067 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167005068 metal binding site [ion binding]; metal-binding site 318167005069 active site 318167005070 I-site; other site 318167005071 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 318167005072 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 318167005073 dimerization interface [polypeptide binding]; other site 318167005074 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 318167005075 dimer interface [polypeptide binding]; other site 318167005076 phosphorylation site [posttranslational modification] 318167005077 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 318167005078 ATP binding site [chemical binding]; other site 318167005079 Mg2+ binding site [ion binding]; other site 318167005080 G-X-G motif; other site 318167005081 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 318167005082 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167005083 active site 318167005084 phosphorylation site [posttranslational modification] 318167005085 intermolecular recognition site; other site 318167005086 dimerization interface [polypeptide binding]; other site 318167005087 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 318167005088 DNA binding site [nucleotide binding] 318167005089 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 318167005090 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 318167005091 Peptidase family M23; Region: Peptidase_M23; pfam01551 318167005092 Uncharacterized conserved protein [Function unknown]; Region: COG3791 318167005093 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 318167005094 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 318167005095 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 318167005096 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 318167005097 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 318167005098 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 318167005099 putative active site [active] 318167005100 catalytic site [active] 318167005101 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 318167005102 putative active site [active] 318167005103 catalytic site [active] 318167005104 hypothetical protein; Provisional; Region: PRK05421 318167005105 putative catalytic site [active] 318167005106 putative metal binding site [ion binding]; other site 318167005107 putative phosphate binding site [ion binding]; other site 318167005108 Domain of unknown function (DUF1971); Region: DUF1971; pfam09313 318167005109 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 318167005110 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 318167005111 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167005112 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 318167005113 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 318167005114 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 318167005115 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 318167005116 iron binding site [ion binding]; other site 318167005117 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167005118 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167005119 LysR substrate binding domain; Region: LysR_substrate; pfam03466 318167005120 dimerization interface [polypeptide binding]; other site 318167005121 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 318167005122 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318167005123 putative substrate translocation pore; other site 318167005124 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 318167005125 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167005126 Coenzyme A binding pocket [chemical binding]; other site 318167005127 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 318167005128 putative metal binding site [ion binding]; other site 318167005129 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 318167005130 Ion transport protein; Region: Ion_trans; pfam00520 318167005131 Ion channel; Region: Ion_trans_2; pfam07885 318167005132 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 318167005133 Double zinc ribbon; Region: DZR; pfam12773 318167005134 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 318167005135 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 318167005136 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 318167005137 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 318167005138 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 318167005139 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 318167005140 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 318167005141 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 318167005142 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167005143 Coenzyme A binding pocket [chemical binding]; other site 318167005144 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 318167005145 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167005146 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 318167005147 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167005148 Coenzyme A binding pocket [chemical binding]; other site 318167005149 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 318167005150 asparagine synthetase B; Provisional; Region: asnB; PRK09431 318167005151 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 318167005152 active site 318167005153 dimer interface [polypeptide binding]; other site 318167005154 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 318167005155 Ligand Binding Site [chemical binding]; other site 318167005156 Molecular Tunnel; other site 318167005157 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 318167005158 ACT domain; Region: ACT_3; pfam10000 318167005159 Family description; Region: ACT_7; pfam13840 318167005160 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 318167005161 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 318167005162 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 318167005163 PA/protease or protease-like domain interface [polypeptide binding]; other site 318167005164 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 318167005165 metal binding site [ion binding]; metal-binding site 318167005166 UMP phosphatase; Provisional; Region: PRK10444 318167005167 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 318167005168 active site 318167005169 motif I; other site 318167005170 motif II; other site 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 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 318167005173 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 318167005174 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 318167005175 acyl-activating enzyme (AAE) consensus motif; other site 318167005176 putative AMP binding site [chemical binding]; other site 318167005177 putative active site [active] 318167005178 putative CoA binding site [chemical binding]; other site 318167005179 putative transposase OrfB; Reviewed; Region: PHA02517 318167005180 HTH-like domain; Region: HTH_21; pfam13276 318167005181 Integrase core domain; Region: rve; pfam00665 318167005182 Integrase core domain; Region: rve_3; pfam13683 318167005183 Transposase; Region: HTH_Tnp_1; pfam01527 318167005184 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 318167005185 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 318167005186 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 318167005187 ligand binding site [chemical binding]; other site 318167005188 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 318167005189 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 318167005190 NADP binding site [chemical binding]; other site 318167005191 dimer interface [polypeptide binding]; other site 318167005192 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318167005193 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 318167005194 C-terminal domain interface [polypeptide binding]; other site 318167005195 GSH binding site (G-site) [chemical binding]; other site 318167005196 dimer interface [polypeptide binding]; other site 318167005197 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318167005198 N-terminal domain interface [polypeptide binding]; other site 318167005199 dimer interface [polypeptide binding]; other site 318167005200 substrate binding pocket (H-site) [chemical binding]; other site 318167005201 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167005202 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167005203 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 318167005204 putative effector binding pocket; other site 318167005205 dimerization interface [polypeptide binding]; other site 318167005206 agmatine deiminase; Provisional; Region: PRK13551 318167005207 agmatine deiminase; Region: agmatine_aguA; TIGR03380 318167005208 amidase; Validated; Region: PRK06565 318167005209 Amidase; Region: Amidase; cl11426 318167005210 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 318167005211 cystathionine beta-lyase; Provisional; Region: PRK09028 318167005212 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 318167005213 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318167005214 catalytic residue [active] 318167005215 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 318167005216 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 318167005217 putative ligand binding site [chemical binding]; other site 318167005218 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 318167005219 dimer interface [polypeptide binding]; other site 318167005220 phosphorylation site [posttranslational modification] 318167005221 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 318167005222 ATP binding site [chemical binding]; other site 318167005223 Mg2+ binding site [ion binding]; other site 318167005224 G-X-G motif; other site 318167005225 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 318167005226 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167005227 active site 318167005228 phosphorylation site [posttranslational modification] 318167005229 intermolecular recognition site; other site 318167005230 dimerization interface [polypeptide binding]; other site 318167005231 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 318167005232 DNA binding site [nucleotide binding] 318167005233 proteobacterial sortase system OmpA family protein; Region: pdsO; TIGR03789 318167005234 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167005235 ligand binding site [chemical binding]; other site 318167005236 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 318167005237 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 318167005238 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 318167005239 metal ion-dependent adhesion site (MIDAS); other site 318167005240 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 318167005241 active site 318167005242 catalytic site [active] 318167005243 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 318167005244 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 318167005245 putative valine binding site [chemical binding]; other site 318167005246 dimer interface [polypeptide binding]; other site 318167005247 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 318167005248 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08979 318167005249 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 318167005250 PYR/PP interface [polypeptide binding]; other site 318167005251 dimer interface [polypeptide binding]; other site 318167005252 TPP binding site [chemical binding]; other site 318167005253 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 318167005254 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 318167005255 TPP-binding site [chemical binding]; other site 318167005256 dimer interface [polypeptide binding]; other site 318167005257 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 318167005258 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 318167005259 putative substrate translocation pore; other site 318167005260 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 318167005261 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 318167005262 Sulfate transporter family; Region: Sulfate_transp; pfam00916 318167005263 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 318167005264 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 318167005265 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 318167005266 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 318167005267 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 318167005268 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 318167005269 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 318167005270 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 318167005271 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 318167005272 cytidine deaminase; Provisional; Region: PRK09027 318167005273 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 318167005274 active site 318167005275 catalytic motif [active] 318167005276 Zn binding site [ion binding]; other site 318167005277 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 318167005278 exonuclease I; Provisional; Region: sbcB; PRK11779 318167005279 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 318167005280 active site 318167005281 catalytic site [active] 318167005282 substrate binding site [chemical binding]; other site 318167005283 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 318167005284 integrase; Provisional; Region: PRK09692 318167005285 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 318167005286 active site 318167005287 Int/Topo IB signature motif; other site 318167005288 Protein of unknown function (DUF3631); Region: DUF3631; pfam12307 318167005289 Adhesin biosynthesis transcription regulatory protein; Region: PapB; cl04012 318167005290 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 318167005291 putative metal binding site [ion binding]; other site 318167005292 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 318167005293 non-specific DNA binding site [nucleotide binding]; other site 318167005294 salt bridge; other site 318167005295 Predicted transcriptional regulator [Transcription]; Region: COG2932 318167005296 sequence-specific DNA binding site [nucleotide binding]; other site 318167005297 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 318167005298 Catalytic site [active] 318167005299 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 318167005300 Helix-turn-helix domain; Region: HTH_36; pfam13730 318167005301 Replication protein P; Region: Phage_lambda_P; pfam06992 318167005302 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 318167005303 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 318167005304 active site 318167005305 DNA binding site [nucleotide binding] 318167005306 Int/Topo IB signature motif; other site 318167005307 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 318167005308 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 318167005309 non-specific DNA binding site [nucleotide binding]; other site 318167005310 salt bridge; other site 318167005311 sequence-specific DNA binding site [nucleotide binding]; other site 318167005312 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 318167005313 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318167005314 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318167005315 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318167005316 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 318167005317 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 318167005318 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 318167005319 putative active site [active] 318167005320 putative metal binding residues [ion binding]; other site 318167005321 signature motif; other site 318167005322 putative triphosphate binding site [ion binding]; other site 318167005323 dimer interface [polypeptide binding]; other site 318167005324 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 318167005325 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 318167005326 catalytic residues [active] 318167005327 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 318167005328 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 318167005329 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 318167005330 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 318167005331 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 318167005332 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 318167005333 Clp protease; Region: CLP_protease; pfam00574 318167005334 oligomer interface [polypeptide binding]; other site 318167005335 active site residues [active] 318167005336 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 318167005337 Mechanosensitive ion channel porin domain; Region: MscS_porin; pfam12795 318167005338 tape measure domain; Region: tape_meas_nterm; TIGR02675 318167005339 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 318167005340 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 318167005341 S-adenosylmethionine binding site [chemical binding]; other site 318167005342 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 318167005343 DNA-binding site [nucleotide binding]; DNA binding site 318167005344 RNA-binding motif; other site 318167005345 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 318167005346 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318167005347 Walker A/P-loop; other site 318167005348 ATP binding site [chemical binding]; other site 318167005349 Q-loop/lid; other site 318167005350 ABC transporter signature motif; other site 318167005351 Walker B; other site 318167005352 D-loop; other site 318167005353 H-loop/switch region; other site 318167005354 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 318167005355 hypothetical protein; Provisional; Region: PRK11239 318167005356 Protein of unknown function, DUF480; Region: DUF480; pfam04337 318167005357 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 318167005358 S1 domain; Region: S1_2; pfam13509 318167005359 S1 domain; Region: S1_2; pfam13509 318167005360 arginine decarboxylase; Provisional; Region: PRK05354 318167005361 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 318167005362 dimer interface [polypeptide binding]; other site 318167005363 active site 318167005364 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318167005365 catalytic residues [active] 318167005366 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 318167005367 Adenosylmethionine decarboxylase; Region: SAM_decarbox; cl03253 318167005368 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 318167005369 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 318167005370 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 318167005371 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 318167005372 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 318167005373 YceI-like domain; Region: YceI; pfam04264 318167005374 Protein of unknown function (DUF3802); Region: DUF3802; pfam12290 318167005375 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 318167005376 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 318167005377 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 318167005378 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 318167005379 generic binding surface II; other site 318167005380 generic binding surface I; other site 318167005381 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 318167005382 putative catalytic site [active] 318167005383 putative metal binding site [ion binding]; other site 318167005384 putative phosphate binding site [ion binding]; other site 318167005385 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 318167005386 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 318167005387 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 318167005388 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 318167005389 dimer interface [polypeptide binding]; other site 318167005390 motif 1; other site 318167005391 active site 318167005392 motif 2; other site 318167005393 motif 3; other site 318167005394 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 318167005395 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 318167005396 putative tRNA-binding site [nucleotide binding]; other site 318167005397 B3/4 domain; Region: B3_4; pfam03483 318167005398 tRNA synthetase B5 domain; Region: B5; smart00874 318167005399 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 318167005400 dimer interface [polypeptide binding]; other site 318167005401 motif 1; other site 318167005402 motif 3; other site 318167005403 motif 2; other site 318167005404 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 318167005405 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 318167005406 IHF dimer interface [polypeptide binding]; other site 318167005407 IHF - DNA interface [nucleotide binding]; other site 318167005408 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 318167005409 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 318167005410 putative acyl-acceptor binding pocket; other site 318167005411 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318167005412 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 318167005413 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 318167005414 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 318167005415 metal binding site [ion binding]; metal-binding site 318167005416 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 318167005417 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 318167005418 substrate binding site [chemical binding]; other site 318167005419 glutamase interaction surface [polypeptide binding]; other site 318167005420 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 318167005421 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 318167005422 catalytic residues [active] 318167005423 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 318167005424 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 318167005425 putative active site [active] 318167005426 oxyanion strand; other site 318167005427 catalytic triad [active] 318167005428 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 318167005429 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 318167005430 active site 318167005431 motif I; other site 318167005432 motif II; other site 318167005433 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 318167005434 putative active site pocket [active] 318167005435 4-fold oligomerization interface [polypeptide binding]; other site 318167005436 metal binding residues [ion binding]; metal-binding site 318167005437 3-fold/trimer interface [polypeptide binding]; other site 318167005438 histidinol-phosphate aminotransferase; Provisional; Region: PRK04635 318167005439 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 318167005440 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167005441 homodimer interface [polypeptide binding]; other site 318167005442 catalytic residue [active] 318167005443 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 318167005444 histidinol dehydrogenase; Region: hisD; TIGR00069 318167005445 NAD binding site [chemical binding]; other site 318167005446 dimerization interface [polypeptide binding]; other site 318167005447 product binding site; other site 318167005448 substrate binding site [chemical binding]; other site 318167005449 zinc binding site [ion binding]; other site 318167005450 catalytic residues [active] 318167005451 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 318167005452 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 318167005453 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 318167005454 PAS domain S-box; Region: sensory_box; TIGR00229 318167005455 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 318167005456 putative active site [active] 318167005457 heme pocket [chemical binding]; other site 318167005458 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167005459 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167005460 metal binding site [ion binding]; metal-binding site 318167005461 active site 318167005462 I-site; other site 318167005463 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 318167005464 Predicted permeases [General function prediction only]; Region: COG0701 318167005465 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 318167005466 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 318167005467 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 318167005468 DEAD_2; Region: DEAD_2; pfam06733 318167005469 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 318167005470 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 318167005471 Glycoprotease family; Region: Peptidase_M22; pfam00814 318167005472 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 318167005473 Predicted methyltransferase [General function prediction only]; Region: COG4798 318167005474 Methyltransferase domain; Region: Methyltransf_23; pfam13489 318167005475 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 318167005476 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167005477 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 318167005478 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 318167005479 acyl-activating enzyme (AAE) consensus motif; other site 318167005480 putative AMP binding site [chemical binding]; other site 318167005481 putative active site [active] 318167005482 putative CoA binding site [chemical binding]; other site 318167005483 ribonuclease D; Provisional; Region: PRK10829 318167005484 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 318167005485 catalytic site [active] 318167005486 putative active site [active] 318167005487 putative substrate binding site [chemical binding]; other site 318167005488 HRDC domain; Region: HRDC; pfam00570 318167005489 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 318167005490 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 318167005491 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 318167005492 Switch I; other site 318167005493 Switch II; other site 318167005494 septum formation inhibitor; Reviewed; Region: minC; PRK04804 318167005495 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 318167005496 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 318167005497 YcgL domain; Region: YcgL; pfam05166 318167005498 Transglycosylase SLT domain; Region: SLT_2; pfam13406 318167005499 murein hydrolase B; Provisional; Region: PRK10760; cl17906 318167005500 hypothetical protein; Provisional; Region: PRK05170 318167005501 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 318167005502 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 318167005503 fatty acid metabolism regulator; Provisional; Region: PRK04984 318167005504 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318167005505 DNA-binding site [nucleotide binding]; DNA binding site 318167005506 FadR C-terminal domain; Region: FadR_C; pfam07840 318167005507 SpoVR family protein; Provisional; Region: PRK11767 318167005508 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 318167005509 hypothetical protein; Provisional; Region: PRK05325 318167005510 PrkA family serine protein kinase; Provisional; Region: PRK15455 318167005511 AAA ATPase domain; Region: AAA_16; pfam13191 318167005512 Walker A motif; other site 318167005513 ATP binding site [chemical binding]; other site 318167005514 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 318167005515 superoxide dismutase; Provisional; Region: PRK10543 318167005516 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 318167005517 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 318167005518 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 318167005519 putative GSH binding site [chemical binding]; other site 318167005520 catalytic residues [active] 318167005521 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 318167005522 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 318167005523 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 318167005524 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 318167005525 Walker A motif; other site 318167005526 ATP binding site [chemical binding]; other site 318167005527 Walker B motif; other site 318167005528 arginine finger; other site 318167005529 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 318167005530 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 318167005531 ArsC family; Region: ArsC; pfam03960 318167005532 catalytic residues [active] 318167005533 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 318167005534 Peptidase family M48; Region: Peptidase_M48; cl12018 318167005535 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 318167005536 TPR motif; other site 318167005537 binding surface 318167005538 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 318167005539 CPxP motif; other site 318167005540 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 318167005541 Domain of unknown function DUF20; Region: UPF0118; pfam01594 318167005542 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 318167005543 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 318167005544 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 318167005545 Ligand binding site; other site 318167005546 oligomer interface; other site 318167005547 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 318167005548 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 318167005549 active site 318167005550 NAD binding site [chemical binding]; other site 318167005551 metal binding site [ion binding]; metal-binding site 318167005552 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 318167005553 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 318167005554 inhibitor-cofactor binding pocket; inhibition site 318167005555 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167005556 catalytic residue [active] 318167005557 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 318167005558 active site clefts [active] 318167005559 zinc binding site [ion binding]; other site 318167005560 dimer interface [polypeptide binding]; other site 318167005561 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 318167005562 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...; Region: Lipase; cl14883 318167005563 nucleophilic elbow; other site 318167005564 catalytic triad; other site 318167005565 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 318167005566 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 318167005567 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 318167005568 metal binding site [ion binding]; metal-binding site 318167005569 dimer interface [polypeptide binding]; other site 318167005570 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 318167005571 ArsC family; Region: ArsC; pfam03960 318167005572 putative catalytic residues [active] 318167005573 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 318167005574 HPr interaction site; other site 318167005575 glycerol kinase (GK) interaction site [polypeptide binding]; other site 318167005576 active site 318167005577 phosphorylation site [posttranslational modification] 318167005578 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 318167005579 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 318167005580 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 318167005581 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 318167005582 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 318167005583 dimerization domain swap beta strand [polypeptide binding]; other site 318167005584 regulatory protein interface [polypeptide binding]; other site 318167005585 active site 318167005586 regulatory phosphorylation site [posttranslational modification]; other site 318167005587 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 318167005588 dimerization interface [polypeptide binding]; other site 318167005589 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167005590 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167005591 dimer interface [polypeptide binding]; other site 318167005592 putative CheW interface [polypeptide binding]; other site 318167005593 Protein of unknown function (DUF3334); Region: DUF3334; pfam11813 318167005594 Transcriptional regulators [Transcription]; Region: PurR; COG1609 318167005595 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 318167005596 DNA binding site [nucleotide binding] 318167005597 domain linker motif; other site 318167005598 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 318167005599 putative dimerization interface [polypeptide binding]; other site 318167005600 putative ligand binding site [chemical binding]; other site 318167005601 Protein of unknown function (DUF808); Region: DUF808; pfam05661 318167005602 Protein of unknown function (DUF805); Region: DUF805; pfam05656 318167005603 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 318167005604 Domain interface; other site 318167005605 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 318167005606 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 318167005607 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 318167005608 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 318167005609 hypothetical protein; Provisional; Region: PRK02135 318167005610 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 318167005611 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318167005612 putative substrate translocation pore; other site 318167005613 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 318167005614 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 318167005615 Ligand Binding Site [chemical binding]; other site 318167005616 Protein of unknown function (DUF2492); Region: DUF2492; pfam10678 318167005617 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 318167005618 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 318167005619 active site 318167005620 catalytic site [active] 318167005621 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 318167005622 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 318167005623 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 318167005624 Ca binding site [ion binding]; other site 318167005625 active site 318167005626 homodimer interface [polypeptide binding]; other site 318167005627 catalytic site [active] 318167005628 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 318167005629 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 318167005630 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 318167005631 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 318167005632 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167005633 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 318167005634 ligand-binding site [chemical binding]; other site 318167005635 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 318167005636 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 318167005637 active site 318167005638 catalytic site [active] 318167005639 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 318167005640 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 318167005641 putative substrate translocation pore; other site 318167005642 16S rRNA methyltransferase B; Provisional; Region: PRK14902 318167005643 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 318167005644 S-adenosylmethionine binding site [chemical binding]; other site 318167005645 GAF domain; Region: GAF_2; pfam13185 318167005646 GAF domain; Region: GAF; cl17456 318167005647 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 318167005648 PAS domain; Region: PAS_9; pfam13426 318167005649 putative active site [active] 318167005650 heme pocket [chemical binding]; other site 318167005651 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167005652 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167005653 metal binding site [ion binding]; metal-binding site 318167005654 active site 318167005655 I-site; other site 318167005656 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 318167005657 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 318167005658 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 318167005659 PAS domain; Region: PAS_9; pfam13426 318167005660 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167005661 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167005662 metal binding site [ion binding]; metal-binding site 318167005663 active site 318167005664 I-site; other site 318167005665 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 318167005666 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 318167005667 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 318167005668 hexamer interface [polypeptide binding]; other site 318167005669 ligand binding site [chemical binding]; other site 318167005670 putative active site [active] 318167005671 NAD(P) binding site [chemical binding]; other site 318167005672 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 318167005673 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 318167005674 putative DNA binding site [nucleotide binding]; other site 318167005675 putative Zn2+ binding site [ion binding]; other site 318167005676 AsnC family; Region: AsnC_trans_reg; pfam01037 318167005677 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 318167005678 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 318167005679 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 318167005680 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 318167005681 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 318167005682 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 318167005683 recombination factor protein RarA; Reviewed; Region: PRK13342 318167005684 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 318167005685 Walker A motif; other site 318167005686 ATP binding site [chemical binding]; other site 318167005687 Walker B motif; other site 318167005688 arginine finger; other site 318167005689 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 318167005690 camphor resistance protein CrcB; Provisional; Region: PRK14197 318167005691 seryl-tRNA synthetase; Provisional; Region: PRK05431 318167005692 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 318167005693 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 318167005694 dimer interface [polypeptide binding]; other site 318167005695 active site 318167005696 motif 1; other site 318167005697 motif 2; other site 318167005698 motif 3; other site 318167005699 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 318167005700 DsrC like protein; Region: DsrC; pfam04358 318167005701 sulfur relay protein TusB/DsrH; Region: sulf_tusB_dsrH; TIGR03011 318167005702 DsrE/DsrF-like family; Region: DrsE; cl00672 318167005703 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 318167005704 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 318167005705 YccA-like proteins; Region: YccA_like; cd10433 318167005706 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 318167005707 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167005708 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 318167005709 dimerization interface [polypeptide binding]; other site 318167005710 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 318167005711 ABC1 family; Region: ABC1; cl17513 318167005712 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167005713 dimer interface [polypeptide binding]; other site 318167005714 putative CheW interface [polypeptide binding]; other site 318167005715 BCCT family transporter; Region: BCCT; pfam02028 318167005716 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 318167005717 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 318167005718 active site 318167005719 catalytic site [active] 318167005720 substrate binding site [chemical binding]; other site 318167005721 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 318167005722 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 318167005723 ligand binding site [chemical binding]; other site 318167005724 flexible hinge region; other site 318167005725 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 318167005726 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 318167005727 metal binding triad; other site 318167005728 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 318167005729 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 318167005730 FtsX-like permease family; Region: FtsX; pfam02687 318167005731 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 318167005732 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 318167005733 Walker A/P-loop; other site 318167005734 ATP binding site [chemical binding]; other site 318167005735 Q-loop/lid; other site 318167005736 ABC transporter signature motif; other site 318167005737 Walker B; other site 318167005738 D-loop; other site 318167005739 H-loop/switch region; other site 318167005740 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 318167005741 HlyD family secretion protein; Region: HlyD_3; pfam13437 318167005742 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 318167005743 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 318167005744 HSP70 interaction site [polypeptide binding]; other site 318167005745 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 318167005746 substrate binding site [polypeptide binding]; other site 318167005747 dimer interface [polypeptide binding]; other site 318167005748 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 318167005749 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 318167005750 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 318167005751 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 318167005752 Walker A/P-loop; other site 318167005753 ATP binding site [chemical binding]; other site 318167005754 Q-loop/lid; other site 318167005755 ABC transporter signature motif; other site 318167005756 Walker B; other site 318167005757 D-loop; other site 318167005758 H-loop/switch region; other site 318167005759 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 318167005760 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 318167005761 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 318167005762 dimer interface [polypeptide binding]; other site 318167005763 conserved gate region; other site 318167005764 ABC-ATPase subunit interface; other site 318167005765 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 318167005766 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 318167005767 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 318167005768 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 318167005769 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 318167005770 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 318167005771 putative ATP binding site [chemical binding]; other site 318167005772 putative substrate binding site [chemical binding]; other site 318167005773 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 318167005774 Acyltransferase family; Region: Acyl_transf_3; pfam01757 318167005775 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 318167005776 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 318167005777 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318167005778 Zn2+ binding site [ion binding]; other site 318167005779 Mg2+ binding site [ion binding]; other site 318167005780 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 318167005781 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 318167005782 putative active site [active] 318167005783 metal binding site [ion binding]; metal-binding site 318167005784 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167005785 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167005786 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 318167005787 dimerization interface [polypeptide binding]; other site 318167005788 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 318167005789 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 318167005790 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318167005791 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167005792 active site 318167005793 phosphorylation site [posttranslational modification] 318167005794 intermolecular recognition site; other site 318167005795 dimerization interface [polypeptide binding]; other site 318167005796 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 318167005797 DNA binding residues [nucleotide binding] 318167005798 dimerization interface [polypeptide binding]; other site 318167005799 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 318167005800 Na binding site [ion binding]; other site 318167005801 PAS fold; Region: PAS_7; pfam12860 318167005802 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318167005803 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 318167005804 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 318167005805 ATP binding site [chemical binding]; other site 318167005806 Mg2+ binding site [ion binding]; other site 318167005807 G-X-G motif; other site 318167005808 Response regulator receiver domain; Region: Response_reg; pfam00072 318167005809 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167005810 active site 318167005811 phosphorylation site [posttranslational modification] 318167005812 intermolecular recognition site; other site 318167005813 dimerization interface [polypeptide binding]; other site 318167005814 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 318167005815 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 318167005816 Walker A/P-loop; other site 318167005817 ATP binding site [chemical binding]; other site 318167005818 Q-loop/lid; other site 318167005819 ABC transporter signature motif; other site 318167005820 Walker B; other site 318167005821 D-loop; other site 318167005822 H-loop/switch region; other site 318167005823 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 318167005824 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 318167005825 acyl-activating enzyme (AAE) consensus motif; other site 318167005826 putative AMP binding site [chemical binding]; other site 318167005827 putative active site [active] 318167005828 putative CoA binding site [chemical binding]; other site 318167005829 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 318167005830 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 318167005831 TM-ABC transporter signature motif; other site 318167005832 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 318167005833 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 318167005834 TM-ABC transporter signature motif; other site 318167005835 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 318167005836 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 318167005837 putative ligand binding site [chemical binding]; other site 318167005838 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 318167005839 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 318167005840 Walker A/P-loop; other site 318167005841 ATP binding site [chemical binding]; other site 318167005842 Q-loop/lid; other site 318167005843 ABC transporter signature motif; other site 318167005844 Walker B; other site 318167005845 D-loop; other site 318167005846 H-loop/switch region; other site 318167005847 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 318167005848 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 318167005849 acyl-activating enzyme (AAE) consensus motif; other site 318167005850 AMP binding site [chemical binding]; other site 318167005851 active site 318167005852 CoA binding site [chemical binding]; other site 318167005853 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 318167005854 CoenzymeA binding site [chemical binding]; other site 318167005855 subunit interaction site [polypeptide binding]; other site 318167005856 PHB binding site; other site 318167005857 Predicted membrane protein (DUF2127); Region: DUF2127; pfam09900 318167005858 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 318167005859 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 318167005860 dimerization interface [polypeptide binding]; other site 318167005861 DPS ferroxidase diiron center [ion binding]; other site 318167005862 ion pore; other site 318167005863 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167005864 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318167005865 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 318167005866 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 318167005867 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318167005868 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 318167005869 ATP binding site [chemical binding]; other site 318167005870 Mg2+ binding site [ion binding]; other site 318167005871 G-X-G motif; other site 318167005872 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 318167005873 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167005874 active site 318167005875 phosphorylation site [posttranslational modification] 318167005876 intermolecular recognition site; other site 318167005877 dimerization interface [polypeptide binding]; other site 318167005878 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318167005879 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318167005880 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 318167005881 TPR motif; other site 318167005882 binding surface 318167005883 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 318167005884 Walker A motif; other site 318167005885 ATP binding site [chemical binding]; other site 318167005886 Walker B motif; other site 318167005887 Uncharacterized conserved protein [Function unknown]; Region: COG0397 318167005888 hypothetical protein; Validated; Region: PRK00029 318167005889 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 318167005890 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 318167005891 Cysteine-rich domain; Region: CCG; pfam02754 318167005892 Cysteine-rich domain; Region: CCG; pfam02754 318167005893 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 318167005894 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 318167005895 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 318167005896 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167005897 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167005898 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 318167005899 putative effector binding pocket; other site 318167005900 dimerization interface [polypeptide binding]; other site 318167005901 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318167005902 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318167005903 DNA-binding site [nucleotide binding]; DNA binding site 318167005904 FCD domain; Region: FCD; pfam07729 318167005905 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 318167005906 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 318167005907 tetramer interface [polypeptide binding]; other site 318167005908 active site 318167005909 Mg2+/Mn2+ binding site [ion binding]; other site 318167005910 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 318167005911 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 318167005912 dimer interface [polypeptide binding]; other site 318167005913 active site 318167005914 citrylCoA binding site [chemical binding]; other site 318167005915 oxalacetate/citrate binding site [chemical binding]; other site 318167005916 coenzyme A binding site [chemical binding]; other site 318167005917 catalytic triad [active] 318167005918 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 318167005919 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 318167005920 substrate binding site [chemical binding]; other site 318167005921 ligand binding site [chemical binding]; other site 318167005922 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 318167005923 substrate binding site [chemical binding]; other site 318167005924 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 318167005925 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 318167005926 TrkA-N domain; Region: TrkA_N; pfam02254 318167005927 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 318167005928 catalytic triad [active] 318167005929 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 318167005930 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 318167005931 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 318167005932 dihydrodipicolinate synthase; Region: dapA; TIGR00674 318167005933 dimer interface [polypeptide binding]; other site 318167005934 active site 318167005935 catalytic residue [active] 318167005936 lipoprotein; Provisional; Region: PRK11679 318167005937 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 318167005938 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167005939 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 318167005940 HlyD family secretion protein; Region: HlyD_3; pfam13437 318167005941 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 318167005942 CoenzymeA binding site [chemical binding]; other site 318167005943 subunit interaction site [polypeptide binding]; other site 318167005944 PHB binding site; other site 318167005945 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 318167005946 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318167005947 active site 318167005948 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 318167005949 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 318167005950 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 318167005951 putative active site [active] 318167005952 putative dimer interface [polypeptide binding]; other site 318167005953 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 318167005954 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 318167005955 active site 318167005956 DNA binding site [nucleotide binding] 318167005957 Haemolysin-III related; Region: HlyIII; cl03831 318167005958 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 318167005959 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 318167005960 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 318167005961 Ligand Binding Site [chemical binding]; other site 318167005962 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 318167005963 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 318167005964 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 318167005965 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 318167005966 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318167005967 catalytic residue [active] 318167005968 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 318167005969 Protein of unknown function (DUF406); Region: DUF406; pfam04175 318167005970 GAF domain; Region: GAF; pfam01590 318167005971 PAS domain; Region: PAS_9; pfam13426 318167005972 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167005973 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167005974 metal binding site [ion binding]; metal-binding site 318167005975 active site 318167005976 I-site; other site 318167005977 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 318167005978 hypothetical protein; Provisional; Region: PRK01617 318167005979 SEC-C motif; Region: SEC-C; pfam02810 318167005980 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 318167005981 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 318167005982 Smr domain; Region: Smr; pfam01713 318167005983 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 318167005984 active site 318167005985 Zn binding site [ion binding]; other site 318167005986 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167005987 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318167005988 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 318167005989 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318167005990 active site 318167005991 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 318167005992 pyruvate kinase; Provisional; Region: PRK05826 318167005993 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 318167005994 domain interfaces; other site 318167005995 active site 318167005996 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 318167005997 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 318167005998 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 318167005999 putative active site [active] 318167006000 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 318167006001 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 318167006002 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 318167006003 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 318167006004 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 318167006005 putative active site [active] 318167006006 phosphogluconate dehydratase; Validated; Region: PRK09054 318167006007 6-phosphogluconate dehydratase; Region: edd; TIGR01196 318167006008 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 318167006009 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 318167006010 active site 318167006011 intersubunit interface [polypeptide binding]; other site 318167006012 catalytic residue [active] 318167006013 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 318167006014 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 318167006015 aspartate racemase; Region: asp_race; TIGR00035 318167006016 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 318167006017 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 318167006018 putative catalytic cysteine [active] 318167006019 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 318167006020 putative active site [active] 318167006021 metal binding site [ion binding]; metal-binding site 318167006022 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 318167006023 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 318167006024 motif II; other site 318167006025 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 318167006026 MarR family; Region: MarR_2; pfam12802 318167006027 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 318167006028 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 318167006029 Na binding site [ion binding]; other site 318167006030 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318167006031 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 318167006032 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 318167006033 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 318167006034 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 318167006035 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 318167006036 putative substrate binding site [chemical binding]; other site 318167006037 putative ATP binding site [chemical binding]; other site 318167006038 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 318167006039 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318167006040 Zn2+ binding site [ion binding]; other site 318167006041 Mg2+ binding site [ion binding]; other site 318167006042 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 318167006043 5'-nucleotidase; Provisional; Region: PRK03826 318167006044 aminotransferase AlaT; Validated; Region: PRK09265 318167006045 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 318167006046 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167006047 homodimer interface [polypeptide binding]; other site 318167006048 catalytic residue [active] 318167006049 elongation factor P; Validated; Region: PRK00529 318167006050 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 318167006051 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 318167006052 RNA binding site [nucleotide binding]; other site 318167006053 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 318167006054 RNA binding site [nucleotide binding]; other site 318167006055 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 318167006056 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 318167006057 flavodoxin FldA; Validated; Region: PRK09267 318167006058 LexA regulated protein; Provisional; Region: PRK11675 318167006059 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 318167006060 PGAP1-like protein; Region: PGAP1; pfam07819 318167006061 acyl-CoA esterase; Provisional; Region: PRK10673 318167006062 SeqA protein; Region: SeqA; pfam03925 318167006063 phosphoglucomutase; Validated; Region: PRK07564 318167006064 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 318167006065 active site 318167006066 substrate binding site [chemical binding]; other site 318167006067 metal binding site [ion binding]; metal-binding site 318167006068 Gram-negative bacterial tonB protein; Region: TonB; cl10048 318167006069 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 318167006070 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 318167006071 dimer interface [polypeptide binding]; other site 318167006072 active site 318167006073 heme binding site [chemical binding]; other site 318167006074 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 318167006075 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167006076 metal binding site [ion binding]; metal-binding site 318167006077 active site 318167006078 I-site; other site 318167006079 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 318167006080 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 318167006081 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 318167006082 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 318167006083 domain interface [polypeptide binding]; other site 318167006084 putative active site [active] 318167006085 catalytic site [active] 318167006086 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 318167006087 domain interface [polypeptide binding]; other site 318167006088 putative active site [active] 318167006089 catalytic site [active] 318167006090 Uncharacterized conserved protein [Function unknown]; Region: COG3148 318167006091 DEAD-like helicases superfamily; Region: DEXDc; smart00487 318167006092 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 318167006093 ATP binding site [chemical binding]; other site 318167006094 putative Mg++ binding site [ion binding]; other site 318167006095 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 318167006096 nucleotide binding region [chemical binding]; other site 318167006097 ATP-binding site [chemical binding]; other site 318167006098 ecotin; Provisional; Region: PRK03719 318167006099 secondary substrate binding site; other site 318167006100 primary substrate binding site; other site 318167006101 inhibition loop; other site 318167006102 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167006103 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167006104 metal binding site [ion binding]; metal-binding site 318167006105 active site 318167006106 I-site; other site 318167006107 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 318167006108 CoA binding domain; Region: CoA_binding_2; pfam13380 318167006109 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 318167006110 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 318167006111 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318167006112 Protein export membrane protein; Region: SecD_SecF; cl14618 318167006113 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167006114 HlyD family secretion protein; Region: HlyD_3; pfam13437 318167006115 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 318167006116 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 318167006117 thioredoxin reductase; Provisional; Region: PRK10262 318167006118 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 318167006119 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167006120 methionine sulfoxide reductase A; Provisional; Region: PRK14054 318167006121 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 318167006122 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 318167006123 putative active site [active] 318167006124 Zn binding site [ion binding]; other site 318167006125 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 318167006126 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 318167006127 tetramer interface [polypeptide binding]; other site 318167006128 TPP-binding site [chemical binding]; other site 318167006129 heterodimer interface [polypeptide binding]; other site 318167006130 phosphorylation loop region [posttranslational modification] 318167006131 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 318167006132 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 318167006133 alpha subunit interface [polypeptide binding]; other site 318167006134 TPP binding site [chemical binding]; other site 318167006135 heterodimer interface [polypeptide binding]; other site 318167006136 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 318167006137 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 318167006138 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 318167006139 E3 interaction surface; other site 318167006140 lipoyl attachment site [posttranslational modification]; other site 318167006141 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 318167006142 E3 interaction surface; other site 318167006143 lipoyl attachment site [posttranslational modification]; other site 318167006144 e3 binding domain; Region: E3_binding; pfam02817 318167006145 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 318167006146 quinolinate synthetase; Provisional; Region: PRK09375 318167006147 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 318167006148 dimerization interface [polypeptide binding]; other site 318167006149 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167006150 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167006151 dimer interface [polypeptide binding]; other site 318167006152 putative CheW interface [polypeptide binding]; other site 318167006153 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 318167006154 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 318167006155 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 318167006156 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 318167006157 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 318167006158 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 318167006159 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 318167006160 Transcriptional regulators [Transcription]; Region: MarR; COG1846 318167006161 MarR family; Region: MarR; pfam01047 318167006162 MarR family; Region: MarR_2; cl17246 318167006163 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 318167006164 BCCT family transporter; Region: BCCT; cl00569 318167006165 choline dehydrogenase; Validated; Region: PRK02106 318167006166 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 318167006167 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 318167006168 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 318167006169 NAD(P) binding site [chemical binding]; other site 318167006170 catalytic residues [active] 318167006171 transcriptional regulator BetI; Validated; Region: PRK00767 318167006172 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318167006173 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 318167006174 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 318167006175 active site 318167006176 catalytic residues [active] 318167006177 DNA binding site [nucleotide binding] 318167006178 Int/Topo IB signature motif; other site 318167006179 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 318167006180 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 318167006181 non-specific DNA binding site [nucleotide binding]; other site 318167006182 salt bridge; other site 318167006183 sequence-specific DNA binding site [nucleotide binding]; other site 318167006184 Domain of unknown function (DUF955); Region: DUF955; cl01076 318167006185 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 318167006186 putative active site [active] 318167006187 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 318167006188 HsdM N-terminal domain; Region: HsdM_N; pfam12161 318167006189 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 318167006190 S-adenosylmethionine binding site [chemical binding]; other site 318167006191 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 318167006192 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 318167006193 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 318167006194 Fic family protein [Function unknown]; Region: COG3177 318167006195 Fic/DOC family; Region: Fic; pfam02661 318167006196 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 318167006197 non-specific DNA interactions [nucleotide binding]; other site 318167006198 DNA binding site [nucleotide binding] 318167006199 sequence specific DNA binding site [nucleotide binding]; other site 318167006200 putative cAMP binding site [chemical binding]; other site 318167006201 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 318167006202 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 318167006203 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 318167006204 ATP binding site [chemical binding]; other site 318167006205 putative Mg++ binding site [ion binding]; other site 318167006206 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 318167006207 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 318167006208 active site 318167006209 Zn binding site [ion binding]; other site 318167006210 Protein of unknown function (DUF330); Region: DUF330; pfam03886 318167006211 mce related protein; Region: MCE; pfam02470 318167006212 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 318167006213 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 318167006214 Walker A/P-loop; other site 318167006215 ATP binding site [chemical binding]; other site 318167006216 Q-loop/lid; other site 318167006217 ABC transporter signature motif; other site 318167006218 Walker B; other site 318167006219 D-loop; other site 318167006220 H-loop/switch region; other site 318167006221 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 318167006222 Permease; Region: Permease; pfam02405 318167006223 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 318167006224 Catalytic site [active] 318167006225 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 318167006226 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 318167006227 active site 318167006228 DNA binding site [nucleotide binding] 318167006229 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 318167006230 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 318167006231 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 318167006232 Predicted metal-binding protein [General function prediction only]; Region: COG3019 318167006233 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 318167006234 Multicopper oxidase; Region: Cu-oxidase; pfam00394 318167006235 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 318167006236 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 318167006237 CopC domain; Region: CopC; pfam04234 318167006238 Copper resistance protein D; Region: CopD; cl00563 318167006239 SnoaL-like domain; Region: SnoaL_3; pfam13474 318167006240 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 318167006241 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; cl17257 318167006242 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 318167006243 PAS fold; Region: PAS_4; pfam08448 318167006244 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 318167006245 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 318167006246 Walker A motif; other site 318167006247 ATP binding site [chemical binding]; other site 318167006248 Walker B motif; other site 318167006249 arginine finger; other site 318167006250 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318167006251 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 318167006252 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 318167006253 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 318167006254 active site residue [active] 318167006255 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 318167006256 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 318167006257 peroxiredoxin; Provisional; Region: PRK13189 318167006258 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 318167006259 dimer interface [polypeptide binding]; other site 318167006260 decamer (pentamer of dimers) interface [polypeptide binding]; other site 318167006261 catalytic triad [active] 318167006262 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167006263 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167006264 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 318167006265 substrate binding pocket [chemical binding]; other site 318167006266 dimerization interface [polypeptide binding]; other site 318167006267 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 318167006268 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 318167006269 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 318167006270 FeS/SAM binding site; other site 318167006271 hypothetical protein; Provisional; Region: PRK10977 318167006272 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 318167006273 PAS domain; Region: PAS_9; pfam13426 318167006274 putative active site [active] 318167006275 heme pocket [chemical binding]; other site 318167006276 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167006277 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167006278 metal binding site [ion binding]; metal-binding site 318167006279 active site 318167006280 I-site; other site 318167006281 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 318167006282 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 318167006283 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 318167006284 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318167006285 catalytic residue [active] 318167006286 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318167006287 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318167006288 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 318167006289 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 318167006290 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167006291 active site 318167006292 phosphorylation site [posttranslational modification] 318167006293 intermolecular recognition site; other site 318167006294 dimerization interface [polypeptide binding]; other site 318167006295 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 318167006296 DNA binding site [nucleotide binding] 318167006297 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 318167006298 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 318167006299 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 318167006300 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 318167006301 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 318167006302 ATP binding site [chemical binding]; other site 318167006303 Mg2+ binding site [ion binding]; other site 318167006304 G-X-G motif; other site 318167006305 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167006306 active site 318167006307 phosphorylation site [posttranslational modification] 318167006308 intermolecular recognition site; other site 318167006309 dimerization interface [polypeptide binding]; other site 318167006310 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 318167006311 putative binding surface; other site 318167006312 active site 318167006313 chaperone protein TorD; Validated; Region: torD; PRK04976 318167006314 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 318167006315 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 318167006316 molybdopterin cofactor binding site [chemical binding]; other site 318167006317 substrate binding site [chemical binding]; other site 318167006318 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 318167006319 molybdopterin cofactor binding site; other site 318167006320 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 318167006321 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 318167006322 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 318167006323 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 318167006324 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167006325 active site 318167006326 phosphorylation site [posttranslational modification] 318167006327 intermolecular recognition site; other site 318167006328 dimerization interface [polypeptide binding]; other site 318167006329 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 318167006330 DNA binding residues [nucleotide binding] 318167006331 dimerization interface [polypeptide binding]; other site 318167006332 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 318167006333 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318167006334 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 318167006335 phosphorylation site [posttranslational modification] 318167006336 dimer interface [polypeptide binding]; other site 318167006337 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 318167006338 ATP binding site [chemical binding]; other site 318167006339 Mg2+ binding site [ion binding]; other site 318167006340 G-X-G motif; other site 318167006341 thiosulfate reductase PhsA; Provisional; Region: PRK15488 318167006342 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 318167006343 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 318167006344 putative [Fe4-S4] binding site [ion binding]; other site 318167006345 putative molybdopterin cofactor binding site [chemical binding]; other site 318167006346 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 318167006347 putative molybdopterin cofactor binding site; other site 318167006348 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 318167006349 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 318167006350 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 318167006351 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 318167006352 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 318167006353 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 318167006354 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 318167006355 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 318167006356 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 318167006357 Int/Topo IB signature motif; other site 318167006358 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 318167006359 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 318167006360 Low-spin heme binding site [chemical binding]; other site 318167006361 Putative water exit pathway; other site 318167006362 Binuclear center (active site) [active] 318167006363 Putative proton exit pathway; other site 318167006364 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 318167006365 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 318167006366 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 318167006367 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 318167006368 Bacterial PH domain; Region: DUF304; cl01348 318167006369 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 318167006370 Cytochrome c; Region: Cytochrom_C; pfam00034 318167006371 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 318167006372 FixH; Region: FixH; pfam05751 318167006373 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 318167006374 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 318167006375 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 318167006376 metal-binding site [ion binding] 318167006377 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 318167006378 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 318167006379 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 318167006380 Family description; Region: DsbD_2; pfam13386 318167006381 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 318167006382 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 318167006383 ligand binding site [chemical binding]; other site 318167006384 flexible hinge region; other site 318167006385 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 318167006386 putative switch regulator; other site 318167006387 non-specific DNA interactions [nucleotide binding]; other site 318167006388 DNA binding site [nucleotide binding] 318167006389 sequence specific DNA binding site [nucleotide binding]; other site 318167006390 putative cAMP binding site [chemical binding]; other site 318167006391 universal stress protein UspE; Provisional; Region: PRK11175 318167006392 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 318167006393 Ligand Binding Site [chemical binding]; other site 318167006394 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 318167006395 Ligand Binding Site [chemical binding]; other site 318167006396 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 318167006397 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 318167006398 Ligand Binding Site [chemical binding]; other site 318167006399 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 318167006400 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 318167006401 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 318167006402 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 318167006403 phosphate binding site [ion binding]; other site 318167006404 putative substrate binding pocket [chemical binding]; other site 318167006405 dimer interface [polypeptide binding]; other site 318167006406 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 318167006407 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 318167006408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167006409 homodimer interface [polypeptide binding]; other site 318167006410 catalytic residue [active] 318167006411 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 318167006412 23S rRNA binding site [nucleotide binding]; other site 318167006413 L21 binding site [polypeptide binding]; other site 318167006414 L13 binding site [polypeptide binding]; other site 318167006415 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 318167006416 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 318167006417 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 318167006418 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 318167006419 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 318167006420 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 318167006421 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 318167006422 active site 318167006423 dimer interface [polypeptide binding]; other site 318167006424 motif 1; other site 318167006425 motif 2; other site 318167006426 motif 3; other site 318167006427 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 318167006428 anticodon binding site; other site 318167006429 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 318167006430 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 318167006431 Lumazine binding domain; Region: Lum_binding; pfam00677 318167006432 Lumazine binding domain; Region: Lum_binding; pfam00677 318167006433 multidrug efflux protein; Reviewed; Region: PRK01766 318167006434 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 318167006435 cation binding site [ion binding]; other site 318167006436 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 318167006437 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 318167006438 NAD(P) binding site [chemical binding]; other site 318167006439 catalytic residues [active] 318167006440 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 318167006441 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 318167006442 dimer interface [polypeptide binding]; other site 318167006443 active site 318167006444 metal binding site [ion binding]; metal-binding site 318167006445 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 318167006446 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 318167006447 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 318167006448 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 318167006449 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318167006450 active site 318167006451 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 318167006452 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318167006453 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 318167006454 N-terminal plug; other site 318167006455 ligand-binding site [chemical binding]; other site 318167006456 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 318167006457 putative FMN binding site [chemical binding]; other site 318167006458 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 318167006459 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 318167006460 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 318167006461 bile acid transporter; Region: bass; TIGR00841 318167006462 Sodium Bile acid symporter family; Region: SBF; pfam01758 318167006463 enoyl-CoA hydratase; Provisional; Region: PRK07509 318167006464 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 318167006465 substrate binding site [chemical binding]; other site 318167006466 oxyanion hole (OAH) forming residues; other site 318167006467 trimer interface [polypeptide binding]; other site 318167006468 enoyl-CoA hydratase; Provisional; Region: PRK06142 318167006469 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 318167006470 substrate binding site [chemical binding]; other site 318167006471 oxyanion hole (OAH) forming residues; other site 318167006472 trimer interface [polypeptide binding]; other site 318167006473 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 318167006474 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 318167006475 catalytic site [active] 318167006476 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 318167006477 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 318167006478 putative active site [active] 318167006479 Transposase; Region: HTH_Tnp_1; pfam01527 318167006480 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 318167006481 putative transposase OrfB; Reviewed; Region: PHA02517 318167006482 HTH-like domain; Region: HTH_21; pfam13276 318167006483 Integrase core domain; Region: rve; pfam00665 318167006484 Integrase core domain; Region: rve_3; pfam13683 318167006485 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 318167006486 Integrase core domain; Region: rve; pfam00665 318167006487 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 318167006488 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 318167006489 Walker A motif; other site 318167006490 ATP binding site [chemical binding]; other site 318167006491 Walker B motif; other site 318167006492 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 318167006493 active site 318167006494 catalytic triad [active] 318167006495 oxyanion hole [active] 318167006496 haloalkane dehalogenase; Provisional; Region: PRK00870 318167006497 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 318167006498 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 318167006499 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 318167006500 Walker A motif; other site 318167006501 ATP binding site [chemical binding]; other site 318167006502 Walker B motif; other site 318167006503 arginine finger; other site 318167006504 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 318167006505 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 318167006506 putative [Fe4-S4] binding site [ion binding]; other site 318167006507 putative molybdopterin cofactor binding site [chemical binding]; other site 318167006508 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 318167006509 putative molybdopterin cofactor binding site; other site 318167006510 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 318167006511 Prostaglandin dehydrogenases; Region: PGDH; cd05288 318167006512 NAD(P) binding site [chemical binding]; other site 318167006513 substrate binding site [chemical binding]; other site 318167006514 dimer interface [polypeptide binding]; other site 318167006515 Patatin-like phospholipase; Region: Patatin; pfam01734 318167006516 Domain of unknown function (DUF1802); Region: DUF1802; cl01755 318167006517 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 318167006518 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 318167006519 acyl-activating enzyme (AAE) consensus motif; other site 318167006520 putative AMP binding site [chemical binding]; other site 318167006521 putative active site [active] 318167006522 putative CoA binding site [chemical binding]; other site 318167006523 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 318167006524 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 318167006525 dimer interface [polypeptide binding]; other site 318167006526 active site 318167006527 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 318167006528 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 318167006529 NAD binding site [chemical binding]; other site 318167006530 homodimer interface [polypeptide binding]; other site 318167006531 active site 318167006532 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 318167006533 putative active site [active] 318167006534 putative catalytic site [active] 318167006535 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 318167006536 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 318167006537 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318167006538 active site 318167006539 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 318167006540 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 318167006541 classical (c) SDRs; Region: SDR_c; cd05233 318167006542 NAD(P) binding site [chemical binding]; other site 318167006543 active site 318167006544 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 318167006545 Phosphotransferase enzyme family; Region: APH; pfam01636 318167006546 putative active site [active] 318167006547 putative substrate binding site [chemical binding]; other site 318167006548 ATP binding site [chemical binding]; other site 318167006549 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 318167006550 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318167006551 active site 318167006552 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 318167006553 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 318167006554 putative active site [active] 318167006555 putative FMN binding site [chemical binding]; other site 318167006556 putative substrate binding site [chemical binding]; other site 318167006557 putative catalytic residue [active] 318167006558 short chain dehydrogenase; Provisional; Region: PRK07035 318167006559 classical (c) SDRs; Region: SDR_c; cd05233 318167006560 NAD(P) binding site [chemical binding]; other site 318167006561 active site 318167006562 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 318167006563 catalytic core [active] 318167006564 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 318167006565 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 318167006566 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167006567 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 318167006568 substrate binding pocket [chemical binding]; other site 318167006569 dimerization interface [polypeptide binding]; other site 318167006570 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 318167006571 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318167006572 substrate binding pocket [chemical binding]; other site 318167006573 membrane-bound complex binding site; other site 318167006574 hinge residues; other site 318167006575 PAS domain S-box; Region: sensory_box; TIGR00229 318167006576 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167006577 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167006578 metal binding site [ion binding]; metal-binding site 318167006579 active site 318167006580 I-site; other site 318167006581 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 318167006582 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 318167006583 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 318167006584 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318167006585 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318167006586 ABC transporter; Region: ABC_tran_2; pfam12848 318167006587 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318167006588 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 318167006589 Peptidase family U32; Region: Peptidase_U32; pfam01136 318167006590 Collagenase; Region: DUF3656; pfam12392 318167006591 Peptidase family U32; Region: Peptidase_U32; cl03113 318167006592 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 318167006593 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167006594 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167006595 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 318167006596 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 318167006597 Flagellin N-methylase; Region: FliB; pfam03692 318167006598 Peptidase M15; Region: Peptidase_M15_3; cl01194 318167006599 DNA phosphorothioation-associated putative methyltransferase; Region: dnd_rel_methyl; TIGR04096 318167006600 dnd system-associated protein 4; Region: dnd_assoc_4; TIGR04062 318167006601 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 318167006602 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318167006603 Walker A/P-loop; other site 318167006604 ATP binding site [chemical binding]; other site 318167006605 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 318167006606 PLD-like domain; Region: PLDc_2; pfam13091 318167006607 putative active site [active] 318167006608 catalytic site [active] 318167006609 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 318167006610 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 318167006611 ATP binding site [chemical binding]; other site 318167006612 putative Mg++ binding site [ion binding]; other site 318167006613 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 318167006614 ATP-binding site [chemical binding]; other site 318167006615 Protein of unknown function DUF262; Region: DUF262; pfam03235 318167006616 Uncharacterized conserved protein [Function unknown]; Region: COG1479 318167006617 Protein of unknown function (DUF4007); Region: DUF4007; pfam13182 318167006618 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 318167006619 Active Sites [active] 318167006620 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 318167006621 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 318167006622 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318167006623 catalytic residue [active] 318167006624 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 318167006625 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 318167006626 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 318167006627 active site 318167006628 hypothetical protein; Provisional; Region: PRK00967 318167006629 Domain of unknown function DUF302; Region: DUF302; pfam03625 318167006630 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 318167006631 C factor cell-cell signaling protein; Provisional; Region: PRK09009 318167006632 NADP binding site [chemical binding]; other site 318167006633 homodimer interface [polypeptide binding]; other site 318167006634 active site 318167006635 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167006636 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 318167006637 dimer interface [polypeptide binding]; other site 318167006638 active site 318167006639 metal binding site [ion binding]; metal-binding site 318167006640 glutathione binding site [chemical binding]; other site 318167006641 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 318167006642 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 318167006643 FMN binding site [chemical binding]; other site 318167006644 active site 318167006645 substrate binding site [chemical binding]; other site 318167006646 catalytic residue [active] 318167006647 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 318167006648 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318167006649 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 318167006650 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 318167006651 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 318167006652 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 318167006653 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 318167006654 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 318167006655 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 318167006656 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 318167006657 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 318167006658 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 318167006659 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 318167006660 putative substrate-binding site; other site 318167006661 nickel binding site [ion binding]; other site 318167006662 Acylphosphatase; Region: Acylphosphatase; pfam00708 318167006663 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 318167006664 HypF finger; Region: zf-HYPF; pfam07503 318167006665 HypF finger; Region: zf-HYPF; pfam07503 318167006666 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 318167006667 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 318167006668 HupF/HypC family; Region: HupF_HypC; pfam01455 318167006669 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 318167006670 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 318167006671 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 318167006672 dimerization interface [polypeptide binding]; other site 318167006673 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 318167006674 ATP binding site [chemical binding]; other site 318167006675 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 318167006676 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 318167006677 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 318167006678 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 318167006679 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318167006680 active site 318167006681 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 318167006682 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 318167006683 short chain dehydrogenase; Provisional; Region: PRK07576 318167006684 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 318167006685 NAD(P) binding site [chemical binding]; other site 318167006686 substrate binding site [chemical binding]; other site 318167006687 homotetramer interface [polypeptide binding]; other site 318167006688 active site 318167006689 homodimer interface [polypeptide binding]; other site 318167006690 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 318167006691 active site 318167006692 dimer interface [polypeptide binding]; other site 318167006693 tetratricopeptide repeat protein; Provisional; Region: PRK11788 318167006694 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 318167006695 binding surface 318167006696 TPR motif; other site 318167006697 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 318167006698 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 318167006699 IHF dimer interface [polypeptide binding]; other site 318167006700 IHF - DNA interface [nucleotide binding]; other site 318167006701 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 318167006702 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 318167006703 RNA binding site [nucleotide binding]; other site 318167006704 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 318167006705 RNA binding site [nucleotide binding]; other site 318167006706 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 318167006707 RNA binding site [nucleotide binding]; other site 318167006708 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 318167006709 RNA binding site [nucleotide binding]; other site 318167006710 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 318167006711 RNA binding site [nucleotide binding]; other site 318167006712 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 318167006713 RNA binding site [nucleotide binding]; other site 318167006714 cytidylate kinase; Provisional; Region: cmk; PRK00023 318167006715 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 318167006716 CMP-binding site; other site 318167006717 The sites determining sugar specificity; other site 318167006718 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 318167006719 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 318167006720 hinge; other site 318167006721 active site 318167006722 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 318167006723 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 318167006724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167006725 homodimer interface [polypeptide binding]; other site 318167006726 catalytic residue [active] 318167006727 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 318167006728 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 318167006729 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 318167006730 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 318167006731 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 318167006732 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318167006733 catalytic residue [active] 318167006734 DNA gyrase subunit A; Validated; Region: PRK05560 318167006735 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 318167006736 CAP-like domain; other site 318167006737 active site 318167006738 primary dimer interface [polypeptide binding]; other site 318167006739 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318167006740 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318167006741 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318167006742 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318167006743 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318167006744 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318167006745 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 318167006746 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 318167006747 S-adenosylmethionine binding site [chemical binding]; other site 318167006748 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 318167006749 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 318167006750 motif II; other site 318167006751 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 318167006752 ATP cone domain; Region: ATP-cone; pfam03477 318167006753 Class I ribonucleotide reductase; Region: RNR_I; cd01679 318167006754 active site 318167006755 dimer interface [polypeptide binding]; other site 318167006756 catalytic residues [active] 318167006757 effector binding site; other site 318167006758 R2 peptide binding site; other site 318167006759 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 318167006760 dimer interface [polypeptide binding]; other site 318167006761 putative radical transfer pathway; other site 318167006762 diiron center [ion binding]; other site 318167006763 tyrosyl radical; other site 318167006764 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 318167006765 catalytic loop [active] 318167006766 iron binding site [ion binding]; other site 318167006767 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 318167006768 Surface antigen; Region: Bac_surface_Ag; pfam01103 318167006769 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 318167006770 ATP binding site [chemical binding]; other site 318167006771 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; cl17302 318167006772 EF-hand domain pair; Region: EF_hand_5; pfam13499 318167006773 Ca2+ binding site [ion binding]; other site 318167006774 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 318167006775 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 318167006776 motif II; other site 318167006777 putative S-transferase; Provisional; Region: PRK11752 318167006778 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 318167006779 C-terminal domain interface [polypeptide binding]; other site 318167006780 GSH binding site (G-site) [chemical binding]; other site 318167006781 dimer interface [polypeptide binding]; other site 318167006782 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 318167006783 dimer interface [polypeptide binding]; other site 318167006784 N-terminal domain interface [polypeptide binding]; other site 318167006785 active site 318167006786 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 318167006787 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 318167006788 active site 318167006789 FMN binding site [chemical binding]; other site 318167006790 2,4-decadienoyl-CoA binding site; other site 318167006791 catalytic residue [active] 318167006792 4Fe-4S cluster binding site [ion binding]; other site 318167006793 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 318167006794 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 318167006795 protease 4; Provisional; Region: PRK10949 318167006796 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 318167006797 tandem repeat interface [polypeptide binding]; other site 318167006798 oligomer interface [polypeptide binding]; other site 318167006799 active site residues [active] 318167006800 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 318167006801 tandem repeat interface [polypeptide binding]; other site 318167006802 oligomer interface [polypeptide binding]; other site 318167006803 active site residues [active] 318167006804 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 318167006805 active site 318167006806 homodimer interface [polypeptide binding]; other site 318167006807 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 318167006808 Double zinc ribbon; Region: DZR; pfam12773 318167006809 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 318167006810 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 318167006811 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 318167006812 putative active site [active] 318167006813 Zn binding site [ion binding]; other site 318167006814 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 318167006815 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167006816 active site 318167006817 phosphorylation site [posttranslational modification] 318167006818 intermolecular recognition site; other site 318167006819 dimerization interface [polypeptide binding]; other site 318167006820 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 318167006821 DNA binding site [nucleotide binding] 318167006822 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 318167006823 lipid kinase; Reviewed; Region: PRK13054 318167006824 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 318167006825 helicase 45; Provisional; Region: PTZ00424 318167006826 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 318167006827 ATP binding site [chemical binding]; other site 318167006828 Mg++ binding site [ion binding]; other site 318167006829 motif III; other site 318167006830 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 318167006831 nucleotide binding region [chemical binding]; other site 318167006832 hypothetical protein; Provisional; Region: PRK11111 318167006833 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 318167006834 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318167006835 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 318167006836 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 318167006837 Fumarase C-terminus; Region: Fumerase_C; pfam05683 318167006838 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 318167006839 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 318167006840 chorismate binding enzyme; Region: Chorismate_bind; cl10555 318167006841 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 318167006842 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 318167006843 C-terminal domain interface [polypeptide binding]; other site 318167006844 GSH binding site (G-site) [chemical binding]; other site 318167006845 dimer interface [polypeptide binding]; other site 318167006846 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318167006847 N-terminal domain interface [polypeptide binding]; other site 318167006848 dimer interface [polypeptide binding]; other site 318167006849 substrate binding pocket (H-site) [chemical binding]; other site 318167006850 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 318167006851 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 318167006852 active site 318167006853 substrate binding site [chemical binding]; other site 318167006854 metal binding site [ion binding]; metal-binding site 318167006855 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 318167006856 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 318167006857 N-terminal plug; other site 318167006858 ligand-binding site [chemical binding]; other site 318167006859 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 318167006860 glycogen synthase; Provisional; Region: glgA; PRK00654 318167006861 ADP-binding pocket [chemical binding]; other site 318167006862 homodimer interface [polypeptide binding]; other site 318167006863 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 318167006864 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 318167006865 ligand binding site; other site 318167006866 oligomer interface; other site 318167006867 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 318167006868 dimer interface [polypeptide binding]; other site 318167006869 N-terminal domain interface [polypeptide binding]; other site 318167006870 sulfate 1 binding site; other site 318167006871 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 318167006872 homodimer interface [polypeptide binding]; other site 318167006873 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 318167006874 active site pocket [active] 318167006875 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 318167006876 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 318167006877 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 318167006878 active site 318167006879 catalytic site [active] 318167006880 glycogen branching enzyme; Provisional; Region: PRK05402 318167006881 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 318167006882 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 318167006883 active site 318167006884 catalytic site [active] 318167006885 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 318167006886 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 318167006887 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 318167006888 putative active site [active] 318167006889 putative CoA binding site [chemical binding]; other site 318167006890 nudix motif; other site 318167006891 metal binding site [ion binding]; metal-binding site 318167006892 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 318167006893 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 318167006894 putative dimer interface [polypeptide binding]; other site 318167006895 putative anticodon binding site; other site 318167006896 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 318167006897 homodimer interface [polypeptide binding]; other site 318167006898 motif 1; other site 318167006899 motif 2; other site 318167006900 active site 318167006901 motif 3; other site 318167006902 excinuclease ABC subunit B; Provisional; Region: PRK05298 318167006903 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 318167006904 ATP binding site [chemical binding]; other site 318167006905 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 318167006906 nucleotide binding region [chemical binding]; other site 318167006907 ATP-binding site [chemical binding]; other site 318167006908 Ultra-violet resistance protein B; Region: UvrB; pfam12344 318167006909 UvrB/uvrC motif; Region: UVR; pfam02151 318167006910 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167006911 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167006912 active site 318167006913 I-site; other site 318167006914 metal binding site [ion binding]; metal-binding site 318167006915 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 318167006916 electron transport complex protein RsxA; Provisional; Region: PRK05151 318167006917 electron transport complex, RnfABCDGE type, B subunit; Region: rnfB; TIGR01944 318167006918 Putative Fe-S cluster; Region: FeS; pfam04060 318167006919 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 318167006920 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 318167006921 SLBB domain; Region: SLBB; pfam10531 318167006922 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 318167006923 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 318167006924 electron transport complex protein RnfG; Validated; Region: PRK01908 318167006925 electron transport complex RsxE subunit; Provisional; Region: PRK12405 318167006926 endonuclease III; Provisional; Region: PRK10702 318167006927 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 318167006928 minor groove reading motif; other site 318167006929 helix-hairpin-helix signature motif; other site 318167006930 substrate binding pocket [chemical binding]; other site 318167006931 active site 318167006932 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 318167006933 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167006934 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 318167006935 dimer interface [polypeptide binding]; other site 318167006936 active site 318167006937 metal binding site [ion binding]; metal-binding site 318167006938 glutathione binding site [chemical binding]; other site 318167006939 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 318167006940 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 318167006941 Walker A motif; other site 318167006942 ATP binding site [chemical binding]; other site 318167006943 Walker B motif; other site 318167006944 arginine finger; other site 318167006945 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 318167006946 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 318167006947 RuvA N terminal domain; Region: RuvA_N; pfam01330 318167006948 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 318167006949 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 318167006950 active site 318167006951 putative DNA-binding cleft [nucleotide binding]; other site 318167006952 dimer interface [polypeptide binding]; other site 318167006953 hypothetical protein; Validated; Region: PRK00110 318167006954 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 318167006955 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 318167006956 dimer interface [polypeptide binding]; other site 318167006957 anticodon binding site; other site 318167006958 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 318167006959 homodimer interface [polypeptide binding]; other site 318167006960 motif 1; other site 318167006961 active site 318167006962 motif 2; other site 318167006963 GAD domain; Region: GAD; pfam02938 318167006964 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 318167006965 active site 318167006966 motif 3; other site 318167006967 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318167006968 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 318167006969 substrate binding pocket [chemical binding]; other site 318167006970 membrane-bound complex binding site; other site 318167006971 hinge residues; other site 318167006972 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 318167006973 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 318167006974 substrate binding pocket [chemical binding]; other site 318167006975 membrane-bound complex binding site; other site 318167006976 hinge residues; other site 318167006977 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 318167006978 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318167006979 substrate binding pocket [chemical binding]; other site 318167006980 membrane-bound complex binding site; other site 318167006981 hinge residues; other site 318167006982 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167006983 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167006984 metal binding site [ion binding]; metal-binding site 318167006985 active site 318167006986 I-site; other site 318167006987 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 318167006988 S-adenosylmethionine binding site [chemical binding]; other site 318167006989 Methyltransferase domain; Region: Methyltransf_23; pfam13489 318167006990 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 318167006991 S-adenosylmethionine binding site [chemical binding]; other site 318167006992 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 318167006993 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 318167006994 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 318167006995 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 318167006996 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 318167006997 Domain of unknown function (DUF3541); Region: DUF3541; pfam12060 318167006998 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167006999 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167007000 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 318167007001 dimerization interface [polypeptide binding]; other site 318167007002 SprA-related family; Region: SprA-related; pfam12118 318167007003 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 318167007004 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 318167007005 FeS/SAM binding site; other site 318167007006 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 318167007007 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 318167007008 ThiS interaction site; other site 318167007009 putative active site [active] 318167007010 tetramer interface [polypeptide binding]; other site 318167007011 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 318167007012 thiS-thiF/thiG interaction site; other site 318167007013 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 318167007014 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 318167007015 ATP binding site [chemical binding]; other site 318167007016 substrate interface [chemical binding]; other site 318167007017 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 318167007018 dimer interface [polypeptide binding]; other site 318167007019 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 318167007020 substrate binding site [chemical binding]; other site 318167007021 ATP binding site [chemical binding]; other site 318167007022 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 318167007023 thiamine phosphate binding site [chemical binding]; other site 318167007024 active site 318167007025 pyrophosphate binding site [ion binding]; other site 318167007026 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 318167007027 ThiC-associated domain; Region: ThiC-associated; pfam13667 318167007028 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 318167007029 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167007030 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 318167007031 TIGR03503 family protein; Region: TIGR03503 318167007032 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 318167007033 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 318167007034 active site 318167007035 catalytic site [active] 318167007036 substrate binding site [chemical binding]; other site 318167007037 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 318167007038 RNA/DNA hybrid binding site [nucleotide binding]; other site 318167007039 active site 318167007040 Methyltransferase domain; Region: Methyltransf_11; pfam08241 318167007041 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 318167007042 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 318167007043 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 318167007044 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318167007045 catalytic residue [active] 318167007046 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318167007047 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318167007048 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 318167007049 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318167007050 AsmA family; Region: AsmA; pfam05170 318167007051 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 318167007052 ribonuclease activity regulator protein RraA; Reviewed; Region: PRK12487 318167007053 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 318167007054 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 318167007055 dimerization interface [polypeptide binding]; other site 318167007056 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167007057 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167007058 dimer interface [polypeptide binding]; other site 318167007059 putative CheW interface [polypeptide binding]; other site 318167007060 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 318167007061 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167007062 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 318167007063 substrate binding pocket [chemical binding]; other site 318167007064 dimerization interface [polypeptide binding]; other site 318167007065 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 318167007066 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318167007067 active site 318167007068 short chain dehydrogenase; Provisional; Region: PRK05650 318167007069 classical (c) SDRs; Region: SDR_c; cd05233 318167007070 NAD(P) binding site [chemical binding]; other site 318167007071 active site 318167007072 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 318167007073 Phosphotransferase enzyme family; Region: APH; pfam01636 318167007074 putative active site [active] 318167007075 putative substrate binding site [chemical binding]; other site 318167007076 ATP binding site [chemical binding]; other site 318167007077 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 318167007078 catalytic core [active] 318167007079 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 318167007080 short chain dehydrogenase; Provisional; Region: PRK08251 318167007081 classical (c) SDR, subgroup 6; Region: SDR_c6; cd05350 318167007082 putative NAD(P) binding site [chemical binding]; other site 318167007083 active site 318167007084 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 318167007085 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 318167007086 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 318167007087 quinone interaction residues [chemical binding]; other site 318167007088 active site 318167007089 catalytic residues [active] 318167007090 FMN binding site [chemical binding]; other site 318167007091 substrate binding site [chemical binding]; other site 318167007092 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 318167007093 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 318167007094 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 318167007095 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 318167007096 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 318167007097 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 318167007098 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 318167007099 aminopeptidase N; Provisional; Region: pepN; PRK14015 318167007100 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 318167007101 active site 318167007102 Zn binding site [ion binding]; other site 318167007103 carboxy-terminal protease; Provisional; Region: PRK11186 318167007104 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 318167007105 protein binding site [polypeptide binding]; other site 318167007106 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 318167007107 Catalytic dyad [active] 318167007108 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 318167007109 ProP expression regulator; Provisional; Region: PRK04950 318167007110 ProQ/FINO family; Region: ProQ; smart00945 318167007111 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 318167007112 GAF domain; Region: GAF_2; pfam13185 318167007113 YebG protein; Region: YebG; pfam07130 318167007114 Paraquat-inducible protein A; Region: PqiA; pfam04403 318167007115 Paraquat-inducible protein A; Region: PqiA; pfam04403 318167007116 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 318167007117 mce related protein; Region: MCE; pfam02470 318167007118 mce related protein; Region: MCE; pfam02470 318167007119 mce related protein; Region: MCE; pfam02470 318167007120 mce related protein; Region: MCE; pfam02470 318167007121 mce related protein; Region: MCE; pfam02470 318167007122 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 318167007123 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 318167007124 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 318167007125 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 318167007126 S-adenosylmethionine binding site [chemical binding]; other site 318167007127 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 318167007128 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 318167007129 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 318167007130 active site 318167007131 PilZ domain; Region: PilZ; cl01260 318167007132 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 318167007133 thymidylate kinase; Validated; Region: tmk; PRK00698 318167007134 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 318167007135 TMP-binding site; other site 318167007136 ATP-binding site [chemical binding]; other site 318167007137 YceG-like family; Region: YceG; pfam02618 318167007138 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 318167007139 dimerization interface [polypeptide binding]; other site 318167007140 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 318167007141 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 318167007142 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167007143 catalytic residue [active] 318167007144 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 318167007145 trimer interface [polypeptide binding]; other site 318167007146 active site 318167007147 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 318167007148 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 318167007149 ATP-binding site [chemical binding]; other site 318167007150 Sugar specificity; other site 318167007151 Pyrimidine base specificity; other site 318167007152 antiporter inner membrane protein; Provisional; Region: PRK11670 318167007153 Domain of unknown function DUF59; Region: DUF59; pfam01883 318167007154 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 318167007155 Walker A motif; other site 318167007156 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 318167007157 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 318167007158 active site 318167007159 HIGH motif; other site 318167007160 KMSKS motif; other site 318167007161 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 318167007162 tRNA binding surface [nucleotide binding]; other site 318167007163 anticodon binding site; other site 318167007164 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 318167007165 dimer interface [polypeptide binding]; other site 318167007166 putative tRNA-binding site [nucleotide binding]; other site 318167007167 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 318167007168 putative cation:proton antiport protein; Provisional; Region: PRK10669 318167007169 TrkA-N domain; Region: TrkA_N; pfam02254 318167007170 Uncharacterized conserved protein [Function unknown]; Region: COG0327 318167007171 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 318167007172 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 318167007173 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 318167007174 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 318167007175 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 318167007176 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 318167007177 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 318167007178 rRNA binding site [nucleotide binding]; other site 318167007179 predicted 30S ribosome binding site; other site 318167007180 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 318167007181 Clp amino terminal domain; Region: Clp_N; pfam02861 318167007182 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 318167007183 Walker A motif; other site 318167007184 ATP binding site [chemical binding]; other site 318167007185 Walker B motif; other site 318167007186 arginine finger; other site 318167007187 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 318167007188 Walker A motif; other site 318167007189 ATP binding site [chemical binding]; other site 318167007190 Walker B motif; other site 318167007191 arginine finger; other site 318167007192 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 318167007193 Uncharacterized conserved protein [Function unknown]; Region: COG2127 318167007194 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 318167007195 DNA-binding site [nucleotide binding]; DNA binding site 318167007196 RNA-binding motif; other site 318167007197 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 318167007198 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 318167007199 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 318167007200 pseudouridine synthase; Region: TIGR00093 318167007201 active site 318167007202 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 318167007203 nudix motif; other site 318167007204 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 318167007205 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 318167007206 putative lysogenization regulator; Reviewed; Region: PRK00218 318167007207 adenylosuccinate lyase; Provisional; Region: PRK09285 318167007208 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 318167007209 tetramer interface [polypeptide binding]; other site 318167007210 active site 318167007211 Cupin superfamily protein; Region: Cupin_4; pfam08007 318167007212 Cupin-like domain; Region: Cupin_8; pfam13621 318167007213 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 318167007214 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 318167007215 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 318167007216 NAD binding site [chemical binding]; other site 318167007217 Phe binding site; other site 318167007218 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 318167007219 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 318167007220 putative active site [active] 318167007221 putative metal binding site [ion binding]; other site 318167007222 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 318167007223 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 318167007224 putative acyl-acceptor binding pocket; other site 318167007225 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 318167007226 FOG: CBS domain [General function prediction only]; Region: COG0517 318167007227 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 318167007228 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 318167007229 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 318167007230 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 318167007231 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 318167007232 FOG: CBS domain [General function prediction only]; Region: COG0517 318167007233 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 318167007234 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167007235 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167007236 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 318167007237 dimerization interface [polypeptide binding]; other site 318167007238 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 318167007239 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 318167007240 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 318167007241 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 318167007242 nudix motif; other site 318167007243 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 318167007244 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 318167007245 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; pfam03334 318167007246 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12507 318167007247 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 318167007248 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 318167007249 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12508 318167007250 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 318167007251 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 318167007252 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 318167007253 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 318167007254 hydrogenase 4 subunit D; Validated; Region: PRK06525 318167007255 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 318167007256 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 318167007257 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 318167007258 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 318167007259 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 318167007260 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 318167007261 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 318167007262 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 318167007263 motif II; other site 318167007264 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 318167007265 VIT family; Region: VIT1; pfam01988 318167007266 Uncharacterized ArCR, COG1888; Region: DUF211; pfam02680 318167007267 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 318167007268 MarR family; Region: MarR; pfam01047 318167007269 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 318167007270 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 318167007271 FAD binding domain; Region: FAD_binding_4; pfam01565 318167007272 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 318167007273 phosphoenolpyruvate synthase; Validated; Region: PRK06464 318167007274 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 318167007275 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 318167007276 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 318167007277 PEP synthetase regulatory protein; Provisional; Region: PRK05339 318167007278 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 318167007279 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 318167007280 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318167007281 Zn2+ binding site [ion binding]; other site 318167007282 Mg2+ binding site [ion binding]; other site 318167007283 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 318167007284 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 318167007285 catalytic core [active] 318167007286 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; pfam07073 318167007287 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 318167007288 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318167007289 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167007290 active site 318167007291 phosphorylation site [posttranslational modification] 318167007292 intermolecular recognition site; other site 318167007293 dimerization interface [polypeptide binding]; other site 318167007294 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 318167007295 DNA binding residues [nucleotide binding] 318167007296 dimerization interface [polypeptide binding]; other site 318167007297 Protein of unknown function (DUF938); Region: DUF938; pfam06080 318167007298 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 318167007299 active site 318167007300 phosphate binding residues; other site 318167007301 catalytic residues [active] 318167007302 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 318167007303 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 318167007304 active site 318167007305 metal binding site [ion binding]; metal-binding site 318167007306 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 318167007307 putative hydrolase; Provisional; Region: PRK11460 318167007308 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 318167007309 Protein of unknown function (DUF3389); Region: DUF3389; pfam11869 318167007310 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 318167007311 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 318167007312 Transglycosylase SLT domain; Region: SLT_2; pfam13406 318167007313 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 318167007314 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318167007315 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 318167007316 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 318167007317 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 318167007318 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 318167007319 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167007320 active site 318167007321 phosphorylation site [posttranslational modification] 318167007322 intermolecular recognition site; other site 318167007323 dimerization interface [polypeptide binding]; other site 318167007324 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 318167007325 RNA polymerase sigma factor; Provisional; Region: PRK12531 318167007326 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167007327 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 318167007328 DNA binding residues [nucleotide binding] 318167007329 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 318167007330 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 318167007331 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 318167007332 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 318167007333 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318167007334 catalytic residue [active] 318167007335 hypothetical protein; Provisional; Region: PRK11770 318167007336 Domain of unknown function (DUF307); Region: DUF307; pfam03733 318167007337 Domain of unknown function (DUF307); Region: DUF307; pfam03733 318167007338 EVE domain; Region: EVE; cl00728 318167007339 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 318167007340 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167007341 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167007342 dimerization interface [polypeptide binding]; other site 318167007343 LysR substrate binding domain; Region: LysR_substrate; pfam03466 318167007344 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 318167007345 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 318167007346 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 318167007347 dimer interface [polypeptide binding]; other site 318167007348 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 318167007349 active site 318167007350 Fe binding site [ion binding]; other site 318167007351 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 318167007352 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 318167007353 Protein of unknown function, DUF482; Region: DUF482; pfam04339 318167007354 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 318167007355 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 318167007356 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 318167007357 HAMP domain; Region: HAMP; pfam00672 318167007358 dimerization interface [polypeptide binding]; other site 318167007359 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167007360 dimer interface [polypeptide binding]; other site 318167007361 putative CheW interface [polypeptide binding]; other site 318167007362 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167007363 PBP superfamily domain; Region: PBP_like_2; cl17296 318167007364 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 318167007365 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 318167007366 active site 318167007367 Zn binding site [ion binding]; other site 318167007368 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 318167007369 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 318167007370 active site 318167007371 metal binding site [ion binding]; metal-binding site 318167007372 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 318167007373 AAA domain; Region: AAA_33; pfam13671 318167007374 NAD-dependent deacetylase; Provisional; Region: PRK00481 318167007375 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 318167007376 NAD+ binding site [chemical binding]; other site 318167007377 substrate binding site [chemical binding]; other site 318167007378 Zn binding site [ion binding]; other site 318167007379 ferric uptake regulator; Provisional; Region: fur; PRK09462 318167007380 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 318167007381 metal binding site 2 [ion binding]; metal-binding site 318167007382 putative DNA binding helix; other site 318167007383 metal binding site 1 [ion binding]; metal-binding site 318167007384 dimer interface [polypeptide binding]; other site 318167007385 structural Zn2+ binding site [ion binding]; other site 318167007386 Membrane transport protein; Region: Mem_trans; cl09117 318167007387 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 318167007388 CoA binding domain; Region: CoA_binding; pfam02629 318167007389 CoA-ligase; Region: Ligase_CoA; pfam00549 318167007390 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 318167007391 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 318167007392 CoA-ligase; Region: Ligase_CoA; pfam00549 318167007393 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 318167007394 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 318167007395 E3 interaction surface; other site 318167007396 lipoyl attachment site [posttranslational modification]; other site 318167007397 e3 binding domain; Region: E3_binding; pfam02817 318167007398 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 318167007399 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 318167007400 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 318167007401 TPP-binding site [chemical binding]; other site 318167007402 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 318167007403 PYR/PP interface [polypeptide binding]; other site 318167007404 dimer interface [polypeptide binding]; other site 318167007405 TPP binding site [chemical binding]; other site 318167007406 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 318167007407 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 318167007408 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 318167007409 L-aspartate oxidase; Provisional; Region: PRK06175 318167007410 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 318167007411 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 318167007412 SdhC subunit interface [polypeptide binding]; other site 318167007413 proximal heme binding site [chemical binding]; other site 318167007414 cardiolipin binding site; other site 318167007415 Iron-sulfur protein interface; other site 318167007416 proximal quinone binding site [chemical binding]; other site 318167007417 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 318167007418 Iron-sulfur protein interface; other site 318167007419 proximal quinone binding site [chemical binding]; other site 318167007420 SdhD (CybS) interface [polypeptide binding]; other site 318167007421 proximal heme binding site [chemical binding]; other site 318167007422 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 318167007423 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 318167007424 dimer interface [polypeptide binding]; other site 318167007425 active site 318167007426 citrylCoA binding site [chemical binding]; other site 318167007427 NADH binding [chemical binding]; other site 318167007428 cationic pore residues; other site 318167007429 oxalacetate/citrate binding site [chemical binding]; other site 318167007430 coenzyme A binding site [chemical binding]; other site 318167007431 catalytic triad [active] 318167007432 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 318167007433 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 318167007434 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 318167007435 RHS Repeat; Region: RHS_repeat; pfam05593 318167007436 RHS Repeat; Region: RHS_repeat; pfam05593 318167007437 RHS Repeat; Region: RHS_repeat; pfam05593 318167007438 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 318167007439 RHS protein; Region: RHS; pfam03527 318167007440 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 318167007441 Protein of unknown function (DUF4237); Region: DUF4237; pfam14021 318167007442 Uncharacterized conserved protein [Function unknown]; Region: COG4104 318167007443 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 318167007444 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 318167007445 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 318167007446 Protein of unknown function (DUF796); Region: DUF796; pfam05638 318167007447 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 318167007448 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 318167007449 Walker A motif; other site 318167007450 ATP binding site [chemical binding]; other site 318167007451 Walker B motif; other site 318167007452 arginine finger; other site 318167007453 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 318167007454 Walker A motif; other site 318167007455 ATP binding site [chemical binding]; other site 318167007456 Walker B motif; other site 318167007457 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 318167007458 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 318167007459 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 318167007460 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 318167007461 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 318167007462 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 318167007463 ImpE protein; Region: ImpE; pfam07024 318167007464 Protein of unknown function (DUF877); Region: DUF877; pfam05943 318167007465 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 318167007466 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 318167007467 Protein of unknown function (DUF877); Region: DUF877; pfam05943 318167007468 Protein of unknown function (DUF770); Region: DUF770; pfam05591 318167007469 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 318167007470 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 318167007471 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 318167007472 active site 318167007473 type VI secretion-associated protein, BMA_A0400 family; Region: VI_minor_4; TIGR03373 318167007474 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 318167007475 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 318167007476 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 318167007477 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 318167007478 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167007479 ligand binding site [chemical binding]; other site 318167007480 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 318167007481 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 318167007482 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 318167007483 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 318167007484 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 318167007485 phosphopeptide binding site; other site 318167007486 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 318167007487 Catalytic domain of Protein Kinases; Region: PKc; cd00180 318167007488 active site 318167007489 ATP binding site [chemical binding]; other site 318167007490 substrate binding site [chemical binding]; other site 318167007491 activation loop (A-loop); other site 318167007492 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 318167007493 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167007494 ligand binding site [chemical binding]; other site 318167007495 rhombotail lipoprotein; Region: rhombo_lipo; TIGR04179 318167007496 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167007497 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 318167007498 HlyD family secretion protein; Region: HlyD_3; pfam13437 318167007499 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318167007500 Protein export membrane protein; Region: SecD_SecF; cl14618 318167007501 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318167007502 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 318167007503 serine/threonine protein kinase; Provisional; Region: PRK14879 318167007504 Uncharacterized conserved protein [Function unknown]; Region: COG2835 318167007505 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 318167007506 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 318167007507 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 318167007508 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 318167007509 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 318167007510 Walker A/P-loop; other site 318167007511 ATP binding site [chemical binding]; other site 318167007512 Q-loop/lid; other site 318167007513 ABC transporter signature motif; other site 318167007514 Walker B; other site 318167007515 D-loop; other site 318167007516 H-loop/switch region; other site 318167007517 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 318167007518 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 318167007519 Competence protein; Region: Competence; pfam03772 318167007520 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 318167007521 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 318167007522 Transcriptional regulators [Transcription]; Region: MarR; COG1846 318167007523 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 318167007524 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 318167007525 FAD binding pocket [chemical binding]; other site 318167007526 FAD binding motif [chemical binding]; other site 318167007527 phosphate binding motif [ion binding]; other site 318167007528 NAD binding pocket [chemical binding]; other site 318167007529 Protein of unknown function (DUF3624); Region: DUF3624; pfam12292 318167007530 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 318167007531 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 318167007532 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 318167007533 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 318167007534 FtsX-like permease family; Region: FtsX; pfam02687 318167007535 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 318167007536 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 318167007537 Walker A/P-loop; other site 318167007538 ATP binding site [chemical binding]; other site 318167007539 Q-loop/lid; other site 318167007540 ABC transporter signature motif; other site 318167007541 Walker B; other site 318167007542 D-loop; other site 318167007543 H-loop/switch region; other site 318167007544 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 318167007545 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 318167007546 FtsX-like permease family; Region: FtsX; pfam02687 318167007547 transcription-repair coupling factor; Provisional; Region: PRK10689 318167007548 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 318167007549 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 318167007550 ATP binding site [chemical binding]; other site 318167007551 putative Mg++ binding site [ion binding]; other site 318167007552 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 318167007553 nucleotide binding region [chemical binding]; other site 318167007554 ATP-binding site [chemical binding]; other site 318167007555 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 318167007556 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 318167007557 beta-hexosaminidase; Provisional; Region: PRK05337 318167007558 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 318167007559 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 318167007560 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 318167007561 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 318167007562 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 318167007563 CreA protein; Region: CreA; pfam05981 318167007564 putative chaperone; Provisional; Region: PRK11678 318167007565 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 318167007566 nucleotide binding site [chemical binding]; other site 318167007567 putative NEF/HSP70 interaction site [polypeptide binding]; other site 318167007568 SBD interface [polypeptide binding]; other site 318167007569 hypothetical protein; Validated; Region: PRK00153 318167007570 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14949 318167007571 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 318167007572 Walker A motif; other site 318167007573 ATP binding site [chemical binding]; other site 318167007574 Walker B motif; other site 318167007575 DNA polymerase III subunit delta'; Validated; Region: PRK08485 318167007576 arginine finger; other site 318167007577 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 318167007578 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 318167007579 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318167007580 active site 318167007581 hypothetical protein; Provisional; Region: PRK10527 318167007582 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 318167007583 Winged helix Storkhead-box1 domain; Region: Stork_head; pfam10264 318167007584 hypothetical protein; Provisional; Region: PRK05409 318167007585 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 318167007586 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 318167007587 FMN binding site [chemical binding]; other site 318167007588 active site 318167007589 catalytic residues [active] 318167007590 substrate binding site [chemical binding]; other site 318167007591 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 318167007592 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318167007593 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 318167007594 N-terminal plug; other site 318167007595 ligand-binding site [chemical binding]; other site 318167007596 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 318167007597 active site 318167007598 multimer interface [polypeptide binding]; other site 318167007599 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 318167007600 ATP-grasp domain; Region: ATP-grasp_4; cl17255 318167007601 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 318167007602 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 318167007603 catalytic loop [active] 318167007604 iron binding site [ion binding]; other site 318167007605 chaperone protein HscA; Provisional; Region: hscA; PRK05183 318167007606 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 318167007607 nucleotide binding site [chemical binding]; other site 318167007608 putative NEF/HSP70 interaction site [polypeptide binding]; other site 318167007609 SBD interface [polypeptide binding]; other site 318167007610 co-chaperone HscB; Provisional; Region: hscB; PRK05014 318167007611 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 318167007612 HSP70 interaction site [polypeptide binding]; other site 318167007613 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 318167007614 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 318167007615 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 318167007616 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 318167007617 trimerization site [polypeptide binding]; other site 318167007618 active site 318167007619 cysteine desulfurase; Provisional; Region: PRK14012 318167007620 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 318167007621 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318167007622 catalytic residue [active] 318167007623 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 318167007624 Rrf2 family protein; Region: rrf2_super; TIGR00738 318167007625 serine O-acetyltransferase; Region: cysE; TIGR01172 318167007626 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 318167007627 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 318167007628 trimer interface [polypeptide binding]; other site 318167007629 active site 318167007630 substrate binding site [chemical binding]; other site 318167007631 CoA binding site [chemical binding]; other site 318167007632 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 318167007633 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 318167007634 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 318167007635 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 318167007636 active site 318167007637 dimerization interface [polypeptide binding]; other site 318167007638 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 318167007639 PilZ domain; Region: PilZ; pfam07238 318167007640 ParA-like protein; Provisional; Region: PHA02518 318167007641 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 318167007642 P-loop; other site 318167007643 Magnesium ion binding site [ion binding]; other site 318167007644 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 318167007645 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 318167007646 GAF domain; Region: GAF_3; pfam13492 318167007647 Histidine kinase; Region: His_kinase; pfam06580 318167007648 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 318167007649 ATP binding site [chemical binding]; other site 318167007650 Mg2+ binding site [ion binding]; other site 318167007651 G-X-G motif; other site 318167007652 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 318167007653 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167007654 active site 318167007655 phosphorylation site [posttranslational modification] 318167007656 intermolecular recognition site; other site 318167007657 dimerization interface [polypeptide binding]; other site 318167007658 LytTr DNA-binding domain; Region: LytTR; pfam04397 318167007659 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 318167007660 Carbon starvation protein CstA; Region: CstA; pfam02554 318167007661 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 318167007662 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 318167007663 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 318167007664 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 318167007665 dimerization interface [polypeptide binding]; other site 318167007666 active site 318167007667 hypothetical protein; Provisional; Region: PRK11020 318167007668 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318167007669 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167007670 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 318167007671 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 318167007672 putative active site [active] 318167007673 putative FMN binding site [chemical binding]; other site 318167007674 putative substrate binding site [chemical binding]; other site 318167007675 putative catalytic residue [active] 318167007676 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 318167007677 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 318167007678 FeS/SAM binding site; other site 318167007679 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 318167007680 ATP cone domain; Region: ATP-cone; pfam03477 318167007681 Class III ribonucleotide reductase; Region: RNR_III; cd01675 318167007682 effector binding site; other site 318167007683 active site 318167007684 Zn binding site [ion binding]; other site 318167007685 glycine loop; other site 318167007686 hypothetical protein; Provisional; Region: PRK10279 318167007687 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 318167007688 active site 318167007689 nucleophile elbow; other site 318167007690 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 318167007691 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 318167007692 ATP binding site [chemical binding]; other site 318167007693 Mg++ binding site [ion binding]; other site 318167007694 motif III; other site 318167007695 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 318167007696 nucleotide binding region [chemical binding]; other site 318167007697 ATP-binding site [chemical binding]; other site 318167007698 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 318167007699 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 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 putative peptidase; Provisional; Region: PRK11649 318167007705 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 318167007706 Peptidase family M23; Region: Peptidase_M23; pfam01551 318167007707 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318167007708 Walker A/P-loop; other site 318167007709 ATP binding site [chemical binding]; other site 318167007710 Q-loop/lid; other site 318167007711 exonuclease subunit SbcC; Provisional; Region: PRK10246 318167007712 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318167007713 ABC transporter signature motif; other site 318167007714 Walker B; other site 318167007715 D-loop; other site 318167007716 H-loop/switch region; other site 318167007717 exonuclease subunit SbcD; Provisional; Region: PRK10966 318167007718 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 318167007719 active site 318167007720 metal binding site [ion binding]; metal-binding site 318167007721 DNA binding site [nucleotide binding] 318167007722 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 318167007723 hypothetical protein; Provisional; Region: PRK10621 318167007724 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 318167007725 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167007726 short chain dehydrogenase; Provisional; Region: PRK07454 318167007727 NAD(P) binding site [chemical binding]; other site 318167007728 active site 318167007729 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 318167007730 S4 domain; Region: S4_2; pfam13275 318167007731 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 318167007732 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 318167007733 putative NAD(P) binding site [chemical binding]; other site 318167007734 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 318167007735 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318167007736 Zn2+ binding site [ion binding]; other site 318167007737 Mg2+ binding site [ion binding]; other site 318167007738 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 318167007739 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 318167007740 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 318167007741 nucleotide binding pocket [chemical binding]; other site 318167007742 K-X-D-G motif; other site 318167007743 catalytic site [active] 318167007744 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 318167007745 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 318167007746 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 318167007747 Dimer interface [polypeptide binding]; other site 318167007748 BRCT sequence motif; other site 318167007749 cell division protein ZipA; Provisional; Region: PRK03427 318167007750 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 318167007751 FtsZ protein binding site [polypeptide binding]; other site 318167007752 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 318167007753 AAA domain; Region: AAA_23; pfam13476 318167007754 Walker A/P-loop; other site 318167007755 ATP binding site [chemical binding]; other site 318167007756 Q-loop/lid; other site 318167007757 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 318167007758 ABC transporter signature motif; other site 318167007759 Walker B; other site 318167007760 D-loop; other site 318167007761 H-loop/switch region; other site 318167007762 putative sulfate transport protein CysZ; Validated; Region: PRK04949 318167007763 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 318167007764 putative ligand binding site [chemical binding]; other site 318167007765 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167007766 Response regulator receiver domain; Region: Response_reg; pfam00072 318167007767 active site 318167007768 phosphorylation site [posttranslational modification] 318167007769 intermolecular recognition site; other site 318167007770 dimerization interface [polypeptide binding]; other site 318167007771 Response regulator receiver domain; Region: Response_reg; pfam00072 318167007772 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167007773 active site 318167007774 phosphorylation site [posttranslational modification] 318167007775 intermolecular recognition site; other site 318167007776 dimerization interface [polypeptide binding]; other site 318167007777 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167007778 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167007779 metal binding site [ion binding]; metal-binding site 318167007780 active site 318167007781 I-site; other site 318167007782 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 318167007783 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 318167007784 dimer interface [polypeptide binding]; other site 318167007785 active site 318167007786 CoA binding pocket [chemical binding]; other site 318167007787 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 318167007788 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 318167007789 dimer interface [polypeptide binding]; other site 318167007790 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167007791 catalytic residue [active] 318167007792 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 318167007793 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167007794 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 318167007795 putative dimerization interface [polypeptide binding]; other site 318167007796 formate transporter FocA; Region: formate_focA; TIGR04060 318167007797 FOG: CBS domain [General function prediction only]; Region: COG0517 318167007798 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 318167007799 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167007800 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167007801 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 318167007802 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 318167007803 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 318167007804 Pyruvate formate lyase 1; Region: PFL1; cd01678 318167007805 coenzyme A binding site [chemical binding]; other site 318167007806 active site 318167007807 catalytic residues [active] 318167007808 glycine loop; other site 318167007809 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 318167007810 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 318167007811 FeS/SAM binding site; other site 318167007812 Protein of unknown function, DUF412; Region: DUF412; pfam04217 318167007813 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 318167007814 propionate/acetate kinase; Provisional; Region: PRK12379 318167007815 phosphate acetyltransferase; Reviewed; Region: PRK05632 318167007816 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 318167007817 DRTGG domain; Region: DRTGG; pfam07085 318167007818 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 318167007819 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 318167007820 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 318167007821 active site 318167007822 interdomain interaction site; other site 318167007823 putative metal-binding site [ion binding]; other site 318167007824 nucleotide binding site [chemical binding]; other site 318167007825 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 318167007826 domain I; other site 318167007827 DNA binding groove [nucleotide binding] 318167007828 phosphate binding site [ion binding]; other site 318167007829 domain II; other site 318167007830 domain III; other site 318167007831 nucleotide binding site [chemical binding]; other site 318167007832 catalytic site [active] 318167007833 domain IV; other site 318167007834 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 318167007835 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 318167007836 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 318167007837 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 318167007838 succinylarginine dihydrolase; Provisional; Region: PRK13281 318167007839 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 318167007840 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 318167007841 LysE type translocator; Region: LysE; cl00565 318167007842 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 318167007843 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 318167007844 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 318167007845 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318167007846 Walker A/P-loop; other site 318167007847 ATP binding site [chemical binding]; other site 318167007848 Q-loop/lid; other site 318167007849 ABC transporter signature motif; other site 318167007850 Walker B; other site 318167007851 D-loop; other site 318167007852 H-loop/switch region; other site 318167007853 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 318167007854 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 318167007855 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167007856 active site 318167007857 phosphorylation site [posttranslational modification] 318167007858 intermolecular recognition site; other site 318167007859 dimerization interface [polypeptide binding]; other site 318167007860 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 318167007861 DNA binding site [nucleotide binding] 318167007862 sensor protein PhoQ; Provisional; Region: PRK10815 318167007863 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 318167007864 ATP binding site [chemical binding]; other site 318167007865 Mg2+ binding site [ion binding]; other site 318167007866 G-X-G motif; other site 318167007867 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 318167007868 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 318167007869 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 318167007870 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318167007871 Zn2+ binding site [ion binding]; other site 318167007872 Mg2+ binding site [ion binding]; other site 318167007873 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 318167007874 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 318167007875 Cl binding site [ion binding]; other site 318167007876 oligomer interface [polypeptide binding]; other site 318167007877 Nucleoid-associated protein [General function prediction only]; Region: COG3081 318167007878 nucleoid-associated protein NdpA; Validated; Region: PRK00378 318167007879 hypothetical protein; Provisional; Region: PRK13689 318167007880 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 318167007881 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 318167007882 Sulfatase; Region: Sulfatase; cl17466 318167007883 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 318167007884 active site 318167007885 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 318167007886 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 318167007887 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 318167007888 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 318167007889 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 318167007890 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 318167007891 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318167007892 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 318167007893 putative N-terminal domain interface [polypeptide binding]; other site 318167007894 putative dimer interface [polypeptide binding]; other site 318167007895 putative substrate binding pocket (H-site) [chemical binding]; other site 318167007896 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 318167007897 S-adenosylmethionine binding site [chemical binding]; other site 318167007898 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 318167007899 EamA-like transporter family; Region: EamA; pfam00892 318167007900 AMP-binding domain protein; Validated; Region: PRK08315 318167007901 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 318167007902 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 318167007903 acyl-activating enzyme (AAE) consensus motif; other site 318167007904 putative AMP binding site [chemical binding]; other site 318167007905 putative active site [active] 318167007906 putative CoA binding site [chemical binding]; other site 318167007907 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 318167007908 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 318167007909 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 318167007910 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 318167007911 PAS domain S-box; Region: sensory_box; TIGR00229 318167007912 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 318167007913 putative active site [active] 318167007914 heme pocket [chemical binding]; other site 318167007915 PAS domain; Region: PAS_9; pfam13426 318167007916 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 318167007917 putative active site [active] 318167007918 heme pocket [chemical binding]; other site 318167007919 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 318167007920 dimer interface [polypeptide binding]; other site 318167007921 phosphorylation site [posttranslational modification] 318167007922 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 318167007923 ATP binding site [chemical binding]; other site 318167007924 Mg2+ binding site [ion binding]; other site 318167007925 G-X-G motif; other site 318167007926 Response regulator receiver domain; Region: Response_reg; pfam00072 318167007927 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167007928 active site 318167007929 phosphorylation site [posttranslational modification] 318167007930 intermolecular recognition site; other site 318167007931 dimerization interface [polypeptide binding]; other site 318167007932 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 318167007933 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 318167007934 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167007935 active site 318167007936 phosphorylation site [posttranslational modification] 318167007937 intermolecular recognition site; other site 318167007938 dimerization interface [polypeptide binding]; other site 318167007939 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318167007940 Zn2+ binding site [ion binding]; other site 318167007941 Mg2+ binding site [ion binding]; other site 318167007942 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 318167007943 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 318167007944 putative substrate translocation pore; other site 318167007945 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 318167007946 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 318167007947 putative active site [active] 318167007948 putative FMN binding site [chemical binding]; other site 318167007949 putative substrate binding site [chemical binding]; other site 318167007950 putative catalytic residue [active] 318167007951 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 318167007952 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167007953 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 318167007954 dimerization interface [polypeptide binding]; other site 318167007955 chaperone protein DnaJ; Provisional; Region: PRK14281 318167007956 L-aspartate oxidase; Provisional; Region: PRK06175 318167007957 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 318167007958 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167007959 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167007960 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 318167007961 putative effector binding pocket; other site 318167007962 dimerization interface [polypeptide binding]; other site 318167007963 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 318167007964 dimerization unit; other site 318167007965 glutathione (GSH) binding pocket [chemical binding]; other site 318167007966 active site residues [active] 318167007967 ATP binding pocket [chemical binding]; other site 318167007968 magnesium binding site [ion binding]; other site 318167007969 glycine rich loop; other site 318167007970 alanine rich loop; other site 318167007971 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 318167007972 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167007973 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 318167007974 DNA binding residues [nucleotide binding] 318167007975 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 318167007976 dimerization interface [polypeptide binding]; other site 318167007977 putative DNA binding site [nucleotide binding]; other site 318167007978 putative Zn2+ binding site [ion binding]; other site 318167007979 Predicted permeases [General function prediction only]; Region: COG0701 318167007980 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 318167007981 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 318167007982 Transcriptional regulators [Transcription]; Region: MarR; COG1846 318167007983 MarR family; Region: MarR; pfam01047 318167007984 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 318167007985 Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]; Region: MecR1; COG4219 318167007986 Penicillinase repressor; Region: Pencillinase_R; cl17580 318167007987 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 318167007988 TMAO/DMSO reductase; Reviewed; Region: PRK05363 318167007989 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 318167007990 Moco binding site; other site 318167007991 metal coordination site [ion binding]; other site 318167007992 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 318167007993 RmuC family; Region: RmuC; pfam02646 318167007994 lytic murein transglycosylase; Provisional; Region: PRK11619 318167007995 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 318167007996 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318167007997 catalytic residue [active] 318167007998 MoxR-like ATPases [General function prediction only]; Region: COG0714 318167007999 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 318167008000 Walker A motif; other site 318167008001 ATP binding site [chemical binding]; other site 318167008002 Walker B motif; other site 318167008003 arginine finger; other site 318167008004 Protein of unknown function DUF58; Region: DUF58; pfam01882 318167008005 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 318167008006 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 318167008007 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 318167008008 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 318167008009 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 318167008010 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 318167008011 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 318167008012 Family description; Region: UvrD_C_2; pfam13538 318167008013 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 318167008014 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 318167008015 AAA domain; Region: AAA_30; pfam13604 318167008016 Family description; Region: UvrD_C_2; pfam13538 318167008017 Restriction endonuclease; Region: Mrr_cat; pfam04471 318167008018 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 318167008019 Alkaline phosphatase homologues; Region: alkPPc; smart00098 318167008020 active site 318167008021 dimer interface [polypeptide binding]; other site 318167008022 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 318167008023 dimer interface [polypeptide binding]; other site 318167008024 Alkaline phosphatase homologues; Region: alkPPc; smart00098 318167008025 active site 318167008026 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 318167008027 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 318167008028 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 318167008029 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 318167008030 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 318167008031 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 318167008032 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 318167008033 N-terminal plug; other site 318167008034 ligand-binding site [chemical binding]; other site 318167008035 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 318167008036 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 318167008037 ATP-grasp domain; Region: ATP-grasp_4; cl17255 318167008038 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 318167008039 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 318167008040 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 318167008041 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 318167008042 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 318167008043 [4Fe-4S] binding site [ion binding]; other site 318167008044 molybdopterin cofactor binding site; other site 318167008045 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 318167008046 molybdopterin cofactor binding site; other site 318167008047 NapD protein; Region: NapD; pfam03927 318167008048 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 318167008049 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 318167008050 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 318167008051 S-adenosylmethionine binding site [chemical binding]; other site 318167008052 Domain of unknown function DUF20; Region: UPF0118; pfam01594 318167008053 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 318167008054 D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase; Provisional; Region: folX; PRK11245 318167008055 active site 318167008056 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 318167008057 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 318167008058 putative NAD(P) binding site [chemical binding]; other site 318167008059 putative active site [active] 318167008060 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167008061 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167008062 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 318167008063 dimerization interface [polypeptide binding]; other site 318167008064 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167008065 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 318167008066 active site 318167008067 metal binding site [ion binding]; metal-binding site 318167008068 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 318167008069 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 318167008070 RNA binding surface [nucleotide binding]; other site 318167008071 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 318167008072 active site 318167008073 uracil binding [chemical binding]; other site 318167008074 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 318167008075 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 318167008076 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 318167008077 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 318167008078 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 318167008079 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 318167008080 Walker A/P-loop; other site 318167008081 ATP binding site [chemical binding]; other site 318167008082 Q-loop/lid; other site 318167008083 ABC transporter signature motif; other site 318167008084 Walker B; other site 318167008085 D-loop; other site 318167008086 H-loop/switch region; other site 318167008087 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 318167008088 active site 318167008089 catalytic triad [active] 318167008090 oxyanion hole [active] 318167008091 switch loop; other site 318167008092 Protein of unknown function (DUF3083); Region: DUF3083; pfam11281 318167008093 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 318167008094 putative inner membrane peptidase; Provisional; Region: PRK11778 318167008095 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 318167008096 tandem repeat interface [polypeptide binding]; other site 318167008097 oligomer interface [polypeptide binding]; other site 318167008098 active site residues [active] 318167008099 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 318167008100 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 318167008101 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 318167008102 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167008103 NAD(P) binding site [chemical binding]; other site 318167008104 active site 318167008105 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 318167008106 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 318167008107 hypothetical protein; Provisional; Region: PRK05415 318167008108 Domain of unknown function (DUF697); Region: DUF697; cl12064 318167008109 YcjX-like family, DUF463; Region: DUF463; pfam04317 318167008110 phage shock protein C; Region: phageshock_pspC; TIGR02978 318167008111 PspC domain; Region: PspC; pfam04024 318167008112 phage shock protein B; Provisional; Region: pspB; PRK09458 318167008113 phage shock protein A; Region: phageshock_pspA; TIGR02977 318167008114 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 318167008115 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 318167008116 Walker A motif; other site 318167008117 ATP binding site [chemical binding]; other site 318167008118 Walker B motif; other site 318167008119 arginine finger; other site 318167008120 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 318167008121 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 318167008122 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 318167008123 peptide binding site [polypeptide binding]; other site 318167008124 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 318167008125 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 318167008126 dimer interface [polypeptide binding]; other site 318167008127 conserved gate region; other site 318167008128 putative PBP binding loops; other site 318167008129 ABC-ATPase subunit interface; other site 318167008130 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 318167008131 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 318167008132 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 318167008133 dimer interface [polypeptide binding]; other site 318167008134 conserved gate region; other site 318167008135 putative PBP binding loops; other site 318167008136 ABC-ATPase subunit interface; other site 318167008137 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 318167008138 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 318167008139 Walker A/P-loop; other site 318167008140 ATP binding site [chemical binding]; other site 318167008141 Q-loop/lid; other site 318167008142 ABC transporter signature motif; other site 318167008143 Walker B; other site 318167008144 D-loop; other site 318167008145 H-loop/switch region; other site 318167008146 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318167008147 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 318167008148 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 318167008149 Walker A/P-loop; other site 318167008150 ATP binding site [chemical binding]; other site 318167008151 Q-loop/lid; other site 318167008152 ABC transporter signature motif; other site 318167008153 Walker B; other site 318167008154 D-loop; other site 318167008155 H-loop/switch region; other site 318167008156 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318167008157 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 318167008158 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 318167008159 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 318167008160 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 318167008161 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 318167008162 heme-binding residues [chemical binding]; other site 318167008163 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 318167008164 L-aspartate oxidase; Provisional; Region: PRK06175 318167008165 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 318167008166 trimer interface [polypeptide binding]; other site 318167008167 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 318167008168 eyelet of channel; other site 318167008169 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167008170 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167008171 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 318167008172 putative dimerization interface [polypeptide binding]; other site 318167008173 Protein of unknown function (DUF819); Region: DUF819; cl02317 318167008174 Helix-turn-helix domain; Region: HTH_18; pfam12833 318167008175 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 318167008176 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 318167008177 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 318167008178 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 318167008179 periplasmic folding chaperone; Provisional; Region: PRK10788 318167008180 SurA N-terminal domain; Region: SurA_N_3; cl07813 318167008181 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 318167008182 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 318167008183 IHF dimer interface [polypeptide binding]; other site 318167008184 IHF - DNA interface [nucleotide binding]; other site 318167008185 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 318167008186 Found in ATP-dependent protease La (LON); Region: LON; smart00464 318167008187 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 318167008188 Walker A motif; other site 318167008189 ATP binding site [chemical binding]; other site 318167008190 Walker B motif; other site 318167008191 arginine finger; other site 318167008192 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 318167008193 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 318167008194 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 318167008195 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 318167008196 Walker A motif; other site 318167008197 ATP binding site [chemical binding]; other site 318167008198 Walker B motif; other site 318167008199 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 318167008200 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 318167008201 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 318167008202 oligomer interface [polypeptide binding]; other site 318167008203 active site residues [active] 318167008204 trigger factor; Provisional; Region: tig; PRK01490 318167008205 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 318167008206 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 318167008207 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 318167008208 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 318167008209 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 318167008210 homodimer interface [polypeptide binding]; other site 318167008211 NADP binding site [chemical binding]; other site 318167008212 substrate binding site [chemical binding]; other site 318167008213 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 318167008214 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 318167008215 active site 318167008216 HIGH motif; other site 318167008217 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 318167008218 KMSKS motif; other site 318167008219 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 318167008220 tRNA binding surface [nucleotide binding]; other site 318167008221 anticodon binding site; other site 318167008222 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 318167008223 substrate binding site [chemical binding]; other site 318167008224 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 318167008225 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 318167008226 putative active site [active] 318167008227 putative metal binding site [ion binding]; other site 318167008228 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 318167008229 dinuclear metal binding motif [ion binding]; other site 318167008230 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 318167008231 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 318167008232 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 318167008233 This domain contains a conserved N-terminal (F/Y)RG motif. It is functionally uncharacterised; Region: FRG; smart00901 318167008234 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 318167008235 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 318167008236 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 318167008237 HsdM N-terminal domain; Region: HsdM_N; pfam12161 318167008238 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 318167008239 Methyltransferase domain; Region: Methyltransf_26; pfam13659 318167008240 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 318167008241 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 318167008242 active site 318167008243 dinuclear metal binding site [ion binding]; other site 318167008244 dimerization interface [polypeptide binding]; other site 318167008245 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 318167008246 catalytic residues [active] 318167008247 catalytic nucleophile [active] 318167008248 Recombinase; Region: Recombinase; pfam07508 318167008249 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 318167008250 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 318167008251 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 318167008252 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 318167008253 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318167008254 active site 318167008255 HIGH motif; other site 318167008256 nucleotide binding site [chemical binding]; other site 318167008257 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 318167008258 KMSKS motif; other site 318167008259 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 318167008260 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 318167008261 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 318167008262 G1 box; other site 318167008263 GTP/Mg2+ binding site [chemical binding]; other site 318167008264 Switch I region; other site 318167008265 G2 box; other site 318167008266 G3 box; other site 318167008267 Switch II region; other site 318167008268 G4 box; other site 318167008269 G5 box; other site 318167008270 Nucleoside recognition; Region: Gate; pfam07670 318167008271 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 318167008272 Nucleoside recognition; Region: Gate; pfam07670 318167008273 FeoA domain; Region: FeoA; pfam04023 318167008274 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 318167008275 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 318167008276 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 318167008277 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 318167008278 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 318167008279 TPR motif; other site 318167008280 binding surface 318167008281 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 318167008282 binding surface 318167008283 TPR motif; other site 318167008284 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 318167008285 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 318167008286 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 318167008287 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 318167008288 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 318167008289 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 318167008290 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 318167008291 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 318167008292 S-adenosylmethionine binding site [chemical binding]; other site 318167008293 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318167008294 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167008295 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167008296 DNA polymerase II; Reviewed; Region: PRK05762 318167008297 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 318167008298 active site 318167008299 catalytic site [active] 318167008300 substrate binding site [chemical binding]; other site 318167008301 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 318167008302 active site 318167008303 metal-binding site 318167008304 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 318167008305 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 318167008306 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 318167008307 hypothetical protein; Provisional; Region: PRK10621 318167008308 Predicted permeases [General function prediction only]; Region: COG0730 318167008309 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 318167008310 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 318167008311 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 318167008312 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 318167008313 putative active site [active] 318167008314 Zn binding site [ion binding]; other site 318167008315 Late competence development protein ComFB; Region: ComFB; pfam10719 318167008316 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 318167008317 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 318167008318 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 318167008319 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 318167008320 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 318167008321 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 318167008322 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 318167008323 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 318167008324 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 318167008325 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 318167008326 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 318167008327 fructuronate transporter; Provisional; Region: PRK10034; cl15264 318167008328 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 318167008329 putative pyridoxal-dependent aspartate 1-decarboxylase; Region: NOD_PanD_pyr; TIGR03799 318167008330 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318167008331 catalytic residue [active] 318167008332 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318167008333 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318167008334 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318167008335 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 318167008336 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 318167008337 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 318167008338 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 318167008339 GIY-YIG motif/motif A; other site 318167008340 active site 318167008341 catalytic site [active] 318167008342 putative DNA binding site [nucleotide binding]; other site 318167008343 metal binding site [ion binding]; metal-binding site 318167008344 UvrB/uvrC motif; Region: UVR; pfam02151 318167008345 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 318167008346 response regulator; Provisional; Region: PRK09483 318167008347 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167008348 active site 318167008349 phosphorylation site [posttranslational modification] 318167008350 intermolecular recognition site; other site 318167008351 dimerization interface [polypeptide binding]; other site 318167008352 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 318167008353 DNA binding residues [nucleotide binding] 318167008354 dimerization interface [polypeptide binding]; other site 318167008355 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 318167008356 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 318167008357 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 318167008358 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 318167008359 active site turn [active] 318167008360 phosphorylation site [posttranslational modification] 318167008361 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 318167008362 active site turn [active] 318167008363 phosphorylation site [posttranslational modification] 318167008364 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 318167008365 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 318167008366 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 318167008367 PAS fold; Region: PAS_3; pfam08447 318167008368 putative active site [active] 318167008369 heme pocket [chemical binding]; other site 318167008370 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167008371 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167008372 metal binding site [ion binding]; metal-binding site 318167008373 active site 318167008374 I-site; other site 318167008375 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 318167008376 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 318167008377 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 318167008378 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 318167008379 active site 1 [active] 318167008380 dimer interface [polypeptide binding]; other site 318167008381 active site 2 [active] 318167008382 ribosome modulation factor; Provisional; Region: PRK14563 318167008383 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 318167008384 ABC transporter ATPase component; Reviewed; Region: PRK11147 318167008385 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318167008386 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318167008387 ABC transporter; Region: ABC_tran_2; pfam12848 318167008388 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318167008389 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 318167008390 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 318167008391 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 318167008392 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 318167008393 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 318167008394 putative RNA binding site [nucleotide binding]; other site 318167008395 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 318167008396 S-adenosylmethionine binding site [chemical binding]; other site 318167008397 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 318167008398 active site residue [active] 318167008399 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 318167008400 YfcL protein; Region: YfcL; pfam08891 318167008401 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 318167008402 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 318167008403 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 318167008404 putative substrate translocation pore; other site 318167008405 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 318167008406 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 318167008407 Tetramer interface [polypeptide binding]; other site 318167008408 active site 318167008409 FMN-binding site [chemical binding]; other site 318167008410 HemK family putative methylases; Region: hemK_fam; TIGR00536 318167008411 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 318167008412 S-adenosylmethionine binding site [chemical binding]; other site 318167008413 hypothetical protein; Provisional; Region: PRK04946 318167008414 Smr domain; Region: Smr; pfam01713 318167008415 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 318167008416 catalytic core [active] 318167008417 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 318167008418 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 318167008419 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 318167008420 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 318167008421 FOG: WD40 repeat [General function prediction only]; Region: COG2319 318167008422 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 318167008423 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 318167008424 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 318167008425 putative active site [active] 318167008426 heme pocket [chemical binding]; other site 318167008427 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167008428 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167008429 metal binding site [ion binding]; metal-binding site 318167008430 active site 318167008431 I-site; other site 318167008432 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 318167008433 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 318167008434 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 318167008435 substrate binding site [chemical binding]; other site 318167008436 oxyanion hole (OAH) forming residues; other site 318167008437 trimer interface [polypeptide binding]; other site 318167008438 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 318167008439 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318167008440 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318167008441 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 318167008442 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 318167008443 dimer interface [polypeptide binding]; other site 318167008444 active site 318167008445 MoxR-like ATPases [General function prediction only]; Region: COG0714 318167008446 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 318167008447 Walker A motif; other site 318167008448 ATP binding site [chemical binding]; other site 318167008449 Walker B motif; other site 318167008450 arginine finger; other site 318167008451 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 318167008452 Protein of unknown function DUF58; Region: DUF58; pfam01882 318167008453 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 318167008454 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 318167008455 metal ion-dependent adhesion site (MIDAS); other site 318167008456 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 318167008457 von Willebrand factor type A domain; Region: VWA_2; pfam13519 318167008458 metal ion-dependent adhesion site (MIDAS); other site 318167008459 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 318167008460 binding surface 318167008461 TPR motif; other site 318167008462 Tetratricopeptide repeat; Region: TPR_16; pfam13432 318167008463 Oxygen tolerance; Region: BatD; pfam13584 318167008464 RNA polymerase sigma factor; Provisional; Region: PRK12517 318167008465 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167008466 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 318167008467 DNA binding residues [nucleotide binding] 318167008468 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 318167008469 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 318167008470 Na binding site [ion binding]; other site 318167008471 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 318167008472 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 318167008473 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318167008474 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 318167008475 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 318167008476 active site residue [active] 318167008477 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 318167008478 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 318167008479 active site 318167008480 catalytic residues [active] 318167008481 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 318167008482 PA/subtilisin-like domain interface [polypeptide binding]; other site 318167008483 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 318167008484 catalytic residues [active] 318167008485 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 318167008486 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 318167008487 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 318167008488 YaeQ protein; Region: YaeQ; pfam07152 318167008489 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 318167008490 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 318167008491 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 318167008492 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 318167008493 active site residue [active] 318167008494 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 318167008495 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 318167008496 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 318167008497 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 318167008498 Protein export membrane protein; Region: SecD_SecF; pfam02355 318167008499 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 318167008500 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 318167008501 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 318167008502 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 318167008503 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 318167008504 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 318167008505 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 318167008506 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 318167008507 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 318167008508 Protein of unknown function, DUF479; Region: DUF479; cl01203 318167008509 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 318167008510 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 318167008511 catalytic residues [active] 318167008512 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 318167008513 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 318167008514 active site 318167008515 serine/threonine transporter SstT; Provisional; Region: PRK13628 318167008516 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 318167008517 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 318167008518 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 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 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 318167008525 active site 318167008526 catalytic residues [active] 318167008527 helicase 45; Provisional; Region: PTZ00424 318167008528 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 318167008529 ATP binding site [chemical binding]; other site 318167008530 Mg++ binding site [ion binding]; other site 318167008531 motif III; other site 318167008532 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 318167008533 nucleotide binding region [chemical binding]; other site 318167008534 ATP-binding site [chemical binding]; other site 318167008535 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 318167008536 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 318167008537 DNA binding site [nucleotide binding] 318167008538 active site 318167008539 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 318167008540 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 318167008541 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318167008542 AlkA N-terminal domain; Region: AlkA_N; pfam06029 318167008543 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 318167008544 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 318167008545 minor groove reading motif; other site 318167008546 helix-hairpin-helix signature motif; other site 318167008547 substrate binding pocket [chemical binding]; other site 318167008548 active site 318167008549 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 318167008550 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 318167008551 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318167008552 Walker A/P-loop; other site 318167008553 ATP binding site [chemical binding]; other site 318167008554 Q-loop/lid; other site 318167008555 ABC transporter signature motif; other site 318167008556 Walker B; other site 318167008557 D-loop; other site 318167008558 H-loop/switch region; other site 318167008559 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 318167008560 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 318167008561 active site 318167008562 HIGH motif; other site 318167008563 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 318167008564 active site 318167008565 KMSKS motif; other site 318167008566 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 318167008567 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 318167008568 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 318167008569 DctM-like transporters; Region: DctM; pfam06808 318167008570 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 318167008571 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 318167008572 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 318167008573 dimer interface [polypeptide binding]; other site 318167008574 phosphorylation site [posttranslational modification] 318167008575 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 318167008576 ATP binding site [chemical binding]; other site 318167008577 Mg2+ binding site [ion binding]; other site 318167008578 G-X-G motif; other site 318167008579 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318167008580 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167008581 active site 318167008582 phosphorylation site [posttranslational modification] 318167008583 intermolecular recognition site; other site 318167008584 dimerization interface [polypeptide binding]; other site 318167008585 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 318167008586 Walker A motif; other site 318167008587 ATP binding site [chemical binding]; other site 318167008588 Walker B motif; other site 318167008589 arginine finger; other site 318167008590 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318167008591 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 318167008592 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318167008593 putative substrate translocation pore; other site 318167008594 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 318167008595 acyl-CoA thioesterase II; Provisional; Region: PRK10526 318167008596 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 318167008597 active site 318167008598 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 318167008599 catalytic triad [active] 318167008600 dimer interface [polypeptide binding]; other site 318167008601 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 318167008602 UbiA prenyltransferase family; Region: UbiA; pfam01040 318167008603 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 318167008604 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 318167008605 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 318167008606 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 318167008607 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 318167008608 acyl-activating enzyme (AAE) consensus motif; other site 318167008609 putative AMP binding site [chemical binding]; other site 318167008610 putative active site [active] 318167008611 putative CoA binding site [chemical binding]; other site 318167008612 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 318167008613 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 318167008614 DNA binding residues [nucleotide binding] 318167008615 putative dimer interface [polypeptide binding]; other site 318167008616 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 318167008617 isovaleryl-CoA dehydrogenase; Region: PLN02519 318167008618 substrate binding site [chemical binding]; other site 318167008619 FAD binding site [chemical binding]; other site 318167008620 catalytic base [active] 318167008621 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 318167008622 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 318167008623 enoyl-CoA hydratase; Provisional; Region: PRK05995 318167008624 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 318167008625 substrate binding site [chemical binding]; other site 318167008626 oxyanion hole (OAH) forming residues; other site 318167008627 trimer interface [polypeptide binding]; other site 318167008628 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 318167008629 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 318167008630 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 318167008631 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 318167008632 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 318167008633 carboxyltransferase (CT) interaction site; other site 318167008634 biotinylation site [posttranslational modification]; other site 318167008635 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 318167008636 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 318167008637 active site 318167008638 catalytic residues [active] 318167008639 metal binding site [ion binding]; metal-binding site 318167008640 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 318167008641 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 318167008642 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 318167008643 Ligand Binding Site [chemical binding]; other site 318167008644 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 318167008645 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 318167008646 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 318167008647 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 318167008648 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 318167008649 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 318167008650 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 318167008651 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 318167008652 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 318167008653 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 318167008654 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 318167008655 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 318167008656 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318167008657 active site 318167008658 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 318167008659 thymidine kinase; Provisional; Region: PRK04296 318167008660 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 318167008661 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 318167008662 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 318167008663 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 318167008664 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 318167008665 Ligand binding site [chemical binding]; other site 318167008666 Electron transfer flavoprotein domain; Region: ETF; pfam01012 318167008667 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 318167008668 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 318167008669 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 318167008670 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 318167008671 homodimer interaction site [polypeptide binding]; other site 318167008672 cofactor binding site; other site 318167008673 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 318167008674 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 318167008675 putative CoA binding site [chemical binding]; other site 318167008676 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 318167008677 trimer interface [polypeptide binding]; other site 318167008678 active site 318167008679 substrate binding site [chemical binding]; other site 318167008680 CoA binding site [chemical binding]; other site 318167008681 prolyl-tRNA synthetase; Provisional; Region: PRK09194 318167008682 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 318167008683 dimer interface [polypeptide binding]; other site 318167008684 motif 1; other site 318167008685 active site 318167008686 motif 2; other site 318167008687 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 318167008688 putative deacylase active site [active] 318167008689 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 318167008690 active site 318167008691 motif 3; other site 318167008692 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 318167008693 anticodon binding site; other site 318167008694 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 318167008695 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 318167008696 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318167008697 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 318167008698 ATP binding site [chemical binding]; other site 318167008699 Mg2+ binding site [ion binding]; other site 318167008700 G-X-G motif; other site 318167008701 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 318167008702 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 318167008703 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318167008704 Zn2+ binding site [ion binding]; other site 318167008705 Mg2+ binding site [ion binding]; other site 318167008706 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 318167008707 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 318167008708 nucleophile elbow; other site 318167008709 NlpE N-terminal domain; Region: NlpE; pfam04170 318167008710 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 318167008711 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 318167008712 substrate binding site; other site 318167008713 tetramer interface; other site 318167008714 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 318167008715 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 318167008716 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 318167008717 NAD binding site [chemical binding]; other site 318167008718 substrate binding site [chemical binding]; other site 318167008719 homodimer interface [polypeptide binding]; other site 318167008720 active site 318167008721 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 318167008722 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 318167008723 NADP binding site [chemical binding]; other site 318167008724 active site 318167008725 putative substrate binding site [chemical binding]; other site 318167008726 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 318167008727 MgtE intracellular N domain; Region: MgtE_N; pfam03448 318167008728 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 318167008729 Divalent cation transporter; Region: MgtE; cl00786 318167008730 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 318167008731 catalytic residues [active] 318167008732 dimer interface [polypeptide binding]; other site 318167008733 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 318167008734 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 318167008735 active site 318167008736 Zn binding site [ion binding]; other site 318167008737 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 318167008738 PBP superfamily domain; Region: PBP_like_2; cl17296 318167008739 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 318167008740 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 318167008741 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 318167008742 putative active site [active] 318167008743 heme pocket [chemical binding]; other site 318167008744 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 318167008745 dimer interface [polypeptide binding]; other site 318167008746 phosphorylation site [posttranslational modification] 318167008747 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 318167008748 ATP binding site [chemical binding]; other site 318167008749 Mg2+ binding site [ion binding]; other site 318167008750 G-X-G motif; other site 318167008751 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 318167008752 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167008753 active site 318167008754 phosphorylation site [posttranslational modification] 318167008755 intermolecular recognition site; other site 318167008756 dimerization interface [polypeptide binding]; other site 318167008757 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 318167008758 DNA binding site [nucleotide binding] 318167008759 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 318167008760 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 318167008761 trimer interface [polypeptide binding]; other site 318167008762 eyelet of channel; other site 318167008763 recombination associated protein; Reviewed; Region: rdgC; PRK00321 318167008764 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318167008765 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 318167008766 C-terminal domain interface [polypeptide binding]; other site 318167008767 GSH binding site (G-site) [chemical binding]; other site 318167008768 dimer interface [polypeptide binding]; other site 318167008769 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318167008770 N-terminal domain interface [polypeptide binding]; other site 318167008771 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 318167008772 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 318167008773 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 318167008774 protein binding site [polypeptide binding]; other site 318167008775 Tetratricopeptide repeat; Region: TPR_12; pfam13424 318167008776 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 318167008777 binding surface 318167008778 TPR motif; other site 318167008779 Tetratricopeptide repeat; Region: TPR_12; pfam13424 318167008780 Tetratricopeptide repeat; Region: TPR_12; pfam13424 318167008781 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 318167008782 binding surface 318167008783 TPR motif; other site 318167008784 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167008785 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167008786 metal binding site [ion binding]; metal-binding site 318167008787 active site 318167008788 I-site; other site 318167008789 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 318167008790 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 318167008791 flap endonuclease-like protein; Provisional; Region: PRK09482 318167008792 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 318167008793 active site 318167008794 metal binding site 1 [ion binding]; metal-binding site 318167008795 putative 5' ssDNA interaction site; other site 318167008796 metal binding site 3; metal-binding site 318167008797 metal binding site 2 [ion binding]; metal-binding site 318167008798 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 318167008799 putative DNA binding site [nucleotide binding]; other site 318167008800 putative metal binding site [ion binding]; other site 318167008801 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 318167008802 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167008803 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 318167008804 isocitrate dehydrogenase; Provisional; Region: PRK08997 318167008805 tartrate dehydrogenase; Region: TTC; TIGR02089 318167008806 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 318167008807 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 318167008808 Protein of unknown function (DUF423); Region: DUF423; pfam04241 318167008809 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 318167008810 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 318167008811 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167008812 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 318167008813 dimerization interface [polypeptide binding]; other site 318167008814 substrate binding pocket [chemical binding]; other site 318167008815 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 318167008816 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 318167008817 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 318167008818 Ligand Binding Site [chemical binding]; other site 318167008819 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 318167008820 active site residue [active] 318167008821 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 318167008822 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 318167008823 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167008824 ligand binding site [chemical binding]; other site 318167008825 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 318167008826 flagellar motor protein PomA; Reviewed; Region: PRK08990 318167008827 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 318167008828 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 318167008829 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 318167008830 substrate binding pocket [chemical binding]; other site 318167008831 chain length determination region; other site 318167008832 substrate-Mg2+ binding site; other site 318167008833 catalytic residues [active] 318167008834 aspartate-rich region 1; other site 318167008835 active site lid residues [active] 318167008836 aspartate-rich region 2; other site 318167008837 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 318167008838 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 318167008839 TPP-binding site; other site 318167008840 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 318167008841 PYR/PP interface [polypeptide binding]; other site 318167008842 dimer interface [polypeptide binding]; other site 318167008843 TPP binding site [chemical binding]; other site 318167008844 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 318167008845 GrpE; Region: GrpE; pfam01025 318167008846 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 318167008847 dimer interface [polypeptide binding]; other site 318167008848 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 318167008849 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 318167008850 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 318167008851 L-lactate permease; Region: Lactate_perm; cl00701 318167008852 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 318167008853 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 318167008854 FAD binding domain; Region: FAD_binding_4; pfam01565 318167008855 4Fe-4S binding domain; Region: Fer4; pfam00037 318167008856 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 318167008857 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 318167008858 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 318167008859 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 318167008860 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 318167008861 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 318167008862 ATP binding site [chemical binding]; other site 318167008863 Mg++ binding site [ion binding]; other site 318167008864 motif III; other site 318167008865 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 318167008866 nucleotide binding region [chemical binding]; other site 318167008867 ATP-binding site [chemical binding]; other site 318167008868 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 318167008869 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 318167008870 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 318167008871 putative active site [active] 318167008872 heme pocket [chemical binding]; other site 318167008873 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 318167008874 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 318167008875 PAS domain; Region: PAS_9; pfam13426 318167008876 putative active site [active] 318167008877 heme pocket [chemical binding]; other site 318167008878 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167008879 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167008880 metal binding site [ion binding]; metal-binding site 318167008881 active site 318167008882 I-site; other site 318167008883 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 318167008884 putative alcohol dehydrogenase; Provisional; Region: PRK09860 318167008885 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 318167008886 dimer interface [polypeptide binding]; other site 318167008887 active site 318167008888 metal binding site [ion binding]; metal-binding site 318167008889 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 318167008890 active site 2 [active] 318167008891 active site 1 [active] 318167008892 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 318167008893 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 318167008894 tetramer interface [polypeptide binding]; other site 318167008895 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167008896 catalytic residue [active] 318167008897 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 318167008898 dimer interface [polypeptide binding]; other site 318167008899 catalytic triad [active] 318167008900 peroxidatic and resolving cysteines [active] 318167008901 mechanosensitive channel MscS; Provisional; Region: PRK10334 318167008902 Conserved TM helix; Region: TM_helix; pfam05552 318167008903 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318167008904 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 318167008905 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167008906 ligand binding site [chemical binding]; other site 318167008907 Response regulator receiver domain; Region: Response_reg; pfam00072 318167008908 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167008909 active site 318167008910 phosphorylation site [posttranslational modification] 318167008911 intermolecular recognition site; other site 318167008912 dimerization interface [polypeptide binding]; other site 318167008913 VacJ like lipoprotein; Region: VacJ; cl01073 318167008914 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 318167008915 Protein of unknown function (DUF3187); Region: DUF3187; pfam11383 318167008916 Response regulator receiver domain; Region: Response_reg; pfam00072 318167008917 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167008918 active site 318167008919 phosphorylation site [posttranslational modification] 318167008920 intermolecular recognition site; other site 318167008921 dimerization interface [polypeptide binding]; other site 318167008922 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167008923 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167008924 metal binding site [ion binding]; metal-binding site 318167008925 active site 318167008926 I-site; other site 318167008927 CHASE domain; Region: CHASE; pfam03924 318167008928 PAS domain S-box; Region: sensory_box; TIGR00229 318167008929 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 318167008930 putative active site [active] 318167008931 heme pocket [chemical binding]; other site 318167008932 PAS domain; Region: PAS_9; pfam13426 318167008933 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 318167008934 putative active site [active] 318167008935 heme pocket [chemical binding]; other site 318167008936 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 318167008937 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 318167008938 putative active site [active] 318167008939 heme pocket [chemical binding]; other site 318167008940 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 318167008941 putative active site [active] 318167008942 heme pocket [chemical binding]; other site 318167008943 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318167008944 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 318167008945 dimer interface [polypeptide binding]; other site 318167008946 phosphorylation site [posttranslational modification] 318167008947 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 318167008948 ATP binding site [chemical binding]; other site 318167008949 Mg2+ binding site [ion binding]; other site 318167008950 G-X-G motif; other site 318167008951 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 318167008952 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167008953 active site 318167008954 phosphorylation site [posttranslational modification] 318167008955 intermolecular recognition site; other site 318167008956 dimerization interface [polypeptide binding]; other site 318167008957 Response regulator receiver domain; Region: Response_reg; pfam00072 318167008958 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167008959 active site 318167008960 phosphorylation site [posttranslational modification] 318167008961 intermolecular recognition site; other site 318167008962 dimerization interface [polypeptide binding]; other site 318167008963 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 318167008964 putative binding surface; other site 318167008965 active site 318167008966 Major royal jelly protein; Region: MRJP; pfam03022 318167008967 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 318167008968 putative catalytic residues [active] 318167008969 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167008970 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318167008971 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 318167008972 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 318167008973 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 318167008974 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167008975 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 318167008976 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 318167008977 DNA binding residues [nucleotide binding] 318167008978 dimer interface [polypeptide binding]; other site 318167008979 putative metal binding site [ion binding]; other site 318167008980 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 318167008981 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 318167008982 Beta-Casp domain; Region: Beta-Casp; smart01027 318167008983 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 318167008984 hypothetical protein; Reviewed; Region: PRK12275 318167008985 four helix bundle protein; Region: TIGR02436 318167008986 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 318167008987 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 318167008988 active site 318167008989 substrate binding site [chemical binding]; other site 318167008990 metal binding site [ion binding]; metal-binding site 318167008991 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 318167008992 active site 318167008993 tetramer interface; other site 318167008994 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 318167008995 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 318167008996 Mg++ binding site [ion binding]; other site 318167008997 putative catalytic motif [active] 318167008998 substrate binding site [chemical binding]; other site 318167008999 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 318167009000 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 318167009001 Mg++ binding site [ion binding]; other site 318167009002 putative catalytic motif [active] 318167009003 substrate binding site [chemical binding]; other site 318167009004 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 318167009005 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 318167009006 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 318167009007 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 318167009008 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 318167009009 NADP binding site [chemical binding]; other site 318167009010 active site 318167009011 putative substrate binding site [chemical binding]; other site 318167009012 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 318167009013 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 318167009014 substrate binding site; other site 318167009015 tetramer interface; other site 318167009016 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 318167009017 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 318167009018 NAD binding site [chemical binding]; other site 318167009019 substrate binding site [chemical binding]; other site 318167009020 homodimer interface [polypeptide binding]; other site 318167009021 active site 318167009022 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 318167009023 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 318167009024 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 318167009025 active site 318167009026 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 318167009027 FkbH-like domain; Region: FkbH; TIGR01686 318167009028 Acid Phosphatase; Region: Acid_PPase; cl17256 318167009029 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 318167009030 classical (c) SDRs; Region: SDR_c; cd05233 318167009031 NAD(P) binding site [chemical binding]; other site 318167009032 active site 318167009033 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 318167009034 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 318167009035 putative ligand binding site [chemical binding]; other site 318167009036 putative NAD binding site [chemical binding]; other site 318167009037 catalytic site [active] 318167009038 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 318167009039 ligand binding site; other site 318167009040 tetramer interface; other site 318167009041 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 318167009042 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 318167009043 active site 318167009044 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 318167009045 Chain length determinant protein; Region: Wzz; pfam02706 318167009046 hypothetical protein; Reviewed; Region: PRK12275 318167009047 four helix bundle protein; Region: TIGR02436 318167009048 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 318167009049 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 318167009050 SLBB domain; Region: SLBB; pfam10531 318167009051 SLBB domain; Region: SLBB; pfam10531 318167009052 SLBB domain; Region: SLBB; pfam10531 318167009053 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 318167009054 SLBB domain; Region: SLBB; pfam10531 318167009055 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 318167009056 transcriptional activator RfaH; Region: RfaH; TIGR01955 318167009057 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 318167009058 heterodimer interface [polypeptide binding]; other site 318167009059 homodimer interface [polypeptide binding]; other site 318167009060 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 318167009061 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 318167009062 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 318167009063 active site 318167009064 homodimer interface [polypeptide binding]; other site 318167009065 catalytic site [active] 318167009066 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 318167009067 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 318167009068 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 318167009069 active site 318167009070 motif I; other site 318167009071 motif II; other site 318167009072 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; cl17915 318167009073 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 318167009074 hypothetical protein; Validated; Region: PRK00228 318167009075 translation initiation factor Sui1; Validated; Region: PRK06824 318167009076 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 318167009077 putative rRNA binding site [nucleotide binding]; other site 318167009078 ferrochelatase; Reviewed; Region: hemH; PRK00035 318167009079 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 318167009080 C-terminal domain interface [polypeptide binding]; other site 318167009081 active site 318167009082 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 318167009083 active site 318167009084 N-terminal domain interface [polypeptide binding]; other site 318167009085 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 318167009086 catalytic residues [active] 318167009087 dimer interface [polypeptide binding]; other site 318167009088 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 318167009089 ATP binding site [chemical binding]; other site 318167009090 Walker A motif; other site 318167009091 Walker B motif; other site 318167009092 Transposase; Region: HTH_Tnp_1; pfam01527 318167009093 putative transposase OrfB; Reviewed; Region: PHA02517 318167009094 HTH-like domain; Region: HTH_21; pfam13276 318167009095 Integrase core domain; Region: rve; pfam00665 318167009096 Integrase core domain; Region: rve_3; pfam13683 318167009097 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 318167009098 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 318167009099 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 318167009100 Walker A motif; other site 318167009101 ATP binding site [chemical binding]; other site 318167009102 Walker B motif; other site 318167009103 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 318167009104 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318167009105 catalytic residue [active] 318167009106 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 318167009107 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 318167009108 YGGT family; Region: YGGT; pfam02325 318167009109 YGGT family; Region: YGGT; pfam02325 318167009110 hypothetical protein; Validated; Region: PRK05090 318167009111 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 318167009112 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 318167009113 active site 318167009114 dimerization interface [polypeptide binding]; other site 318167009115 HemN family oxidoreductase; Provisional; Region: PRK05660 318167009116 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 318167009117 FeS/SAM binding site; other site 318167009118 HemN C-terminal domain; Region: HemN_C; pfam06969 318167009119 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 318167009120 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167009121 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167009122 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 318167009123 putative effector binding pocket; other site 318167009124 dimerization interface [polypeptide binding]; other site 318167009125 hypothetical protein; Provisional; Region: PRK10626 318167009126 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 318167009127 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 318167009128 glutaminase; Provisional; Region: PRK00971 318167009129 hypothetical protein; Provisional; Region: PRK11702 318167009130 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 318167009131 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 318167009132 S-adenosylmethionine binding site [chemical binding]; other site 318167009133 adenine DNA glycosylase; Provisional; Region: PRK10880 318167009134 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 318167009135 minor groove reading motif; other site 318167009136 helix-hairpin-helix signature motif; other site 318167009137 substrate binding pocket [chemical binding]; other site 318167009138 active site 318167009139 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 318167009140 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 318167009141 DNA binding and oxoG recognition site [nucleotide binding] 318167009142 oxidative damage protection protein; Provisional; Region: PRK05408 318167009143 hypothetical protein; Provisional; Region: PRK03757 318167009144 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 318167009145 SapC; Region: SapC; pfam07277 318167009146 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 318167009147 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167009148 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 318167009149 Nitrogen regulatory protein P-II; Region: P-II; smart00938 318167009150 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 318167009151 Type II transport protein GspH; Region: GspH; pfam12019 318167009152 Type II transport protein GspH; Region: GspH; pfam12019 318167009153 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 318167009154 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 318167009155 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 318167009156 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 318167009157 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 318167009158 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 318167009159 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 318167009160 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 318167009161 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 318167009162 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 318167009163 lipoprotein signal peptidase; Provisional; Region: PRK14787 318167009164 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 318167009165 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318167009166 active site 318167009167 HIGH motif; other site 318167009168 nucleotide binding site [chemical binding]; other site 318167009169 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 318167009170 active site 318167009171 KMSKS motif; other site 318167009172 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 318167009173 tRNA binding surface [nucleotide binding]; other site 318167009174 anticodon binding site; other site 318167009175 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 318167009176 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 318167009177 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 318167009178 active site 318167009179 Riboflavin kinase; Region: Flavokinase; smart00904 318167009180 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 318167009181 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 318167009182 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 318167009183 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 318167009184 dimerization interface [polypeptide binding]; other site 318167009185 putative DNA binding site [nucleotide binding]; other site 318167009186 putative Zn2+ binding site [ion binding]; other site 318167009187 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 318167009188 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 318167009189 PA/protease or protease-like domain interface [polypeptide binding]; other site 318167009190 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 318167009191 Peptidase family M28; Region: Peptidase_M28; pfam04389 318167009192 metal binding site [ion binding]; metal-binding site 318167009193 hypothetical protein; Validated; Region: PRK02101 318167009194 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 318167009195 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 318167009196 putative phosphoketolase; Provisional; Region: PRK05261 318167009197 XFP N-terminal domain; Region: XFP_N; pfam09364 318167009198 XFP C-terminal domain; Region: XFP_C; pfam09363 318167009199 outer membrane protein A; Reviewed; Region: PRK10808 318167009200 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 318167009201 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318167009202 ligand binding site [chemical binding]; other site 318167009203 transaldolase-like protein; Provisional; Region: PTZ00411 318167009204 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 318167009205 active site 318167009206 dimer interface [polypeptide binding]; other site 318167009207 catalytic residue [active] 318167009208 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 318167009209 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 318167009210 active site 318167009211 dimer interface [polypeptide binding]; other site 318167009212 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 318167009213 dimer interface [polypeptide binding]; other site 318167009214 active site 318167009215 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 318167009216 Hemerythrin-like domain; Region: Hr-like; cd12108 318167009217 Fe binding site [ion binding]; other site 318167009218 threonine synthase; Validated; Region: PRK09225 318167009219 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 318167009220 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318167009221 catalytic residue [active] 318167009222 homoserine kinase; Provisional; Region: PRK01212 318167009223 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 318167009224 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 318167009225 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 318167009226 putative catalytic residues [active] 318167009227 putative nucleotide binding site [chemical binding]; other site 318167009228 putative aspartate binding site [chemical binding]; other site 318167009229 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 318167009230 dimer interface [polypeptide binding]; other site 318167009231 putative threonine allosteric regulatory site; other site 318167009232 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 318167009233 putative threonine allosteric regulatory site; other site 318167009234 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 318167009235 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 318167009236 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 318167009237 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 318167009238 Trp repressor protein; Region: Trp_repressor; pfam01371 318167009239 Cytochrome C' Region: Cytochrom_C_2; pfam01322 318167009240 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 318167009241 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 318167009242 30S subunit binding site; other site 318167009243 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 318167009244 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 318167009245 Prephenate dehydratase; Region: PDT; pfam00800 318167009246 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 318167009247 putative L-Phe binding site [chemical binding]; other site 318167009248 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 318167009249 Predicted membrane protein [Function unknown]; Region: COG3671 318167009250 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 318167009251 Chorismate mutase type II; Region: CM_2; cl00693 318167009252 prephenate dehydrogenase; Validated; Region: PRK08507 318167009253 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 318167009254 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 318167009255 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 318167009256 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 318167009257 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 318167009258 RimM N-terminal domain; Region: RimM; pfam01782 318167009259 PRC-barrel domain; Region: PRC; pfam05239 318167009260 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 318167009261 signal recognition particle protein; Provisional; Region: PRK10867 318167009262 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 318167009263 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 318167009264 P loop; other site 318167009265 GTP binding site [chemical binding]; other site 318167009266 Signal peptide binding domain; Region: SRP_SPB; pfam02978 318167009267 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 318167009268 hypothetical protein; Provisional; Region: PRK11573 318167009269 Domain of unknown function DUF21; Region: DUF21; pfam01595 318167009270 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 318167009271 Transporter associated domain; Region: CorC_HlyC; smart01091 318167009272 Protein of unknown function (DUF962); Region: DUF962; cl01879 318167009273 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 318167009274 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 318167009275 active site 318167009276 hydrophilic channel; other site 318167009277 dimerization interface [polypeptide binding]; other site 318167009278 catalytic residues [active] 318167009279 active site lid [active] 318167009280 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 318167009281 Recombination protein O N terminal; Region: RecO_N; pfam11967 318167009282 Recombination protein O C terminal; Region: RecO_C; pfam02565 318167009283 GTPase Era; Reviewed; Region: era; PRK00089 318167009284 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 318167009285 G1 box; other site 318167009286 GTP/Mg2+ binding site [chemical binding]; other site 318167009287 Switch I region; other site 318167009288 G2 box; other site 318167009289 Switch II region; other site 318167009290 G3 box; other site 318167009291 G4 box; other site 318167009292 G5 box; other site 318167009293 KH domain; Region: KH_2; pfam07650 318167009294 ribonuclease III; Reviewed; Region: rnc; PRK00102 318167009295 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 318167009296 dimerization interface [polypeptide binding]; other site 318167009297 active site 318167009298 metal binding site [ion binding]; metal-binding site 318167009299 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 318167009300 dsRNA binding site [nucleotide binding]; other site 318167009301 signal peptidase I; Provisional; Region: PRK10861 318167009302 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 318167009303 Catalytic site [active] 318167009304 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 318167009305 GTP-binding protein LepA; Provisional; Region: PRK05433 318167009306 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 318167009307 G1 box; other site 318167009308 putative GEF interaction site [polypeptide binding]; other site 318167009309 GTP/Mg2+ binding site [chemical binding]; other site 318167009310 Switch I region; other site 318167009311 G2 box; other site 318167009312 G3 box; other site 318167009313 Switch II region; other site 318167009314 G4 box; other site 318167009315 G5 box; other site 318167009316 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 318167009317 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 318167009318 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 318167009319 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 318167009320 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 318167009321 anti-sigma E factor; Provisional; Region: rseB; PRK09455 318167009322 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 318167009323 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 318167009324 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 318167009325 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 318167009326 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167009327 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 318167009328 DNA binding residues [nucleotide binding] 318167009329 L-aspartate oxidase; Provisional; Region: PRK09077 318167009330 L-aspartate oxidase; Provisional; Region: PRK06175 318167009331 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 318167009332 Uncharacterized conserved protein [Function unknown]; Region: COG2938 318167009333 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 318167009334 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167009335 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 318167009336 dimerization interface [polypeptide binding]; other site 318167009337 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 318167009338 thymidylate synthase; Reviewed; Region: thyA; PRK01827 318167009339 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 318167009340 dimerization interface [polypeptide binding]; other site 318167009341 active site 318167009342 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 318167009343 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 318167009344 GAF domain; Region: GAF; pfam01590 318167009345 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 318167009346 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 318167009347 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 318167009348 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 318167009349 putative active site [active] 318167009350 Ap4A binding site [chemical binding]; other site 318167009351 nudix motif; other site 318167009352 putative metal binding site [ion binding]; other site 318167009353 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 318167009354 putative DNA-binding cleft [nucleotide binding]; other site 318167009355 putative DNA clevage site; other site 318167009356 molecular lever; other site 318167009357 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 318167009358 cyclase homology domain; Region: CHD; cd07302 318167009359 nucleotidyl binding site; other site 318167009360 metal binding site [ion binding]; metal-binding site 318167009361 dimer interface [polypeptide binding]; other site 318167009362 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 318167009363 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167009364 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 318167009365 dimerization interface [polypeptide binding]; other site 318167009366 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 318167009367 putative binding surface; other site 318167009368 active site 318167009369 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 318167009370 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 318167009371 FeS/SAM binding site; other site 318167009372 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 318167009373 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 318167009374 active site 318167009375 dimer interface [polypeptide binding]; other site 318167009376 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 318167009377 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 318167009378 active site 318167009379 FMN binding site [chemical binding]; other site 318167009380 substrate binding site [chemical binding]; other site 318167009381 3Fe-4S cluster binding site [ion binding]; other site 318167009382 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 318167009383 domain interface; other site 318167009384 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 318167009385 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 318167009386 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 318167009387 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167009388 Flagellar protein YcgR; Region: YcgR_2; pfam12945 318167009389 PilZ domain; Region: PilZ; pfam07238 318167009390 Cytochrome c; Region: Cytochrom_C; pfam00034 318167009391 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 318167009392 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318167009393 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167009394 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 318167009395 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 318167009396 mercuric reductase; Validated; Region: PRK06370 318167009397 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 318167009398 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167009399 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 318167009400 Protein of unknown function, DUF547; Region: DUF547; pfam04784 318167009401 hypothetical protein; Provisional; Region: PRK11622 318167009402 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 318167009403 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 318167009404 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 318167009405 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 318167009406 dimer interface [polypeptide binding]; other site 318167009407 conserved gate region; other site 318167009408 putative PBP binding loops; other site 318167009409 ABC-ATPase subunit interface; other site 318167009410 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 318167009411 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318167009412 Walker A/P-loop; other site 318167009413 ATP binding site [chemical binding]; other site 318167009414 Q-loop/lid; other site 318167009415 ABC transporter signature motif; other site 318167009416 Walker B; other site 318167009417 D-loop; other site 318167009418 H-loop/switch region; other site 318167009419 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 318167009420 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 318167009421 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 318167009422 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 318167009423 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167009424 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167009425 metal binding site [ion binding]; metal-binding site 318167009426 active site 318167009427 I-site; other site 318167009428 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 318167009429 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 318167009430 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 318167009431 CobD/Cbib protein; Region: CobD_Cbib; cl00561 318167009432 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 318167009433 hypothetical protein; Provisional; Region: PRK10578 318167009434 UPF0126 domain; Region: UPF0126; pfam03458 318167009435 UPF0126 domain; Region: UPF0126; pfam03458 318167009436 SnoaL-like domain; Region: SnoaL_2; pfam12680 318167009437 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 318167009438 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 318167009439 active site 318167009440 HIGH motif; other site 318167009441 dimer interface [polypeptide binding]; other site 318167009442 KMSKS motif; other site 318167009443 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 318167009444 RNA binding surface [nucleotide binding]; other site 318167009445 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 318167009446 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 318167009447 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 318167009448 Predicted transcriptional regulator [Transcription]; Region: COG3905 318167009449 Peptidase family M23; Region: Peptidase_M23; pfam01551 318167009450 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 318167009451 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 318167009452 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 318167009453 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 318167009454 Cl- selectivity filter; other site 318167009455 Cl- binding residues [ion binding]; other site 318167009456 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 318167009457 pore gating glutamate residue; other site 318167009458 dimer interface [polypeptide binding]; other site 318167009459 aspartate carbamoyltransferase; Provisional; Region: PRK08192 318167009460 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 318167009461 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 318167009462 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 318167009463 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 318167009464 inhibitor-cofactor binding pocket; inhibition site 318167009465 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167009466 catalytic residue [active] 318167009467 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 318167009468 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 318167009469 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 318167009470 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 318167009471 Walker A motif; other site 318167009472 ATP binding site [chemical binding]; other site 318167009473 Walker B motif; other site 318167009474 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 318167009475 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 318167009476 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 318167009477 active site 318167009478 NTP binding site [chemical binding]; other site 318167009479 metal binding triad [ion binding]; metal-binding site 318167009480 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 318167009481 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318167009482 Zn2+ binding site [ion binding]; other site 318167009483 Mg2+ binding site [ion binding]; other site 318167009484 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 318167009485 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 318167009486 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 318167009487 Bacitracin resistance protein BacA; Region: BacA; pfam02673 318167009488 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 318167009489 catalytic center binding site [active] 318167009490 ATP binding site [chemical binding]; other site 318167009491 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 318167009492 homooctamer interface [polypeptide binding]; other site 318167009493 active site 318167009494 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 318167009495 UGMP family protein; Validated; Region: PRK09604 318167009496 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 318167009497 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 318167009498 Yqey-like protein; Region: YqeY; pfam09424 318167009499 DNA primase; Validated; Region: dnaG; PRK05667 318167009500 CHC2 zinc finger; Region: zf-CHC2; pfam01807 318167009501 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 318167009502 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 318167009503 active site 318167009504 metal binding site [ion binding]; metal-binding site 318167009505 interdomain interaction site; other site 318167009506 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 318167009507 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 318167009508 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 318167009509 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 318167009510 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 318167009511 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 318167009512 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318167009513 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 318167009514 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 318167009515 DNA binding residues [nucleotide binding] 318167009516 Cache domain; Region: Cache_1; pfam02743 318167009517 HAMP domain; Region: HAMP; pfam00672 318167009518 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167009519 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167009520 metal binding site [ion binding]; metal-binding site 318167009521 active site 318167009522 I-site; other site 318167009523 Protein of unknown function, DUF599; Region: DUF599; pfam04654 318167009524 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 318167009525 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 318167009526 active site 318167009527 Cache domain; Region: Cache_1; pfam02743 318167009528 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 318167009529 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 318167009530 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167009531 dimer interface [polypeptide binding]; other site 318167009532 putative CheW interface [polypeptide binding]; other site 318167009533 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 318167009534 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 318167009535 inhibitor-cofactor binding pocket; inhibition site 318167009536 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167009537 catalytic residue [active] 318167009538 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 318167009539 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 318167009540 tetramerization interface [polypeptide binding]; other site 318167009541 NAD(P) binding site [chemical binding]; other site 318167009542 catalytic residues [active] 318167009543 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 318167009544 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 318167009545 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 318167009546 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 318167009547 dimer interface [polypeptide binding]; other site 318167009548 conserved gate region; other site 318167009549 putative PBP binding loops; other site 318167009550 ABC-ATPase subunit interface; other site 318167009551 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 318167009552 dimer interface [polypeptide binding]; other site 318167009553 conserved gate region; other site 318167009554 putative PBP binding loops; other site 318167009555 ABC-ATPase subunit interface; other site 318167009556 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 318167009557 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318167009558 Walker A/P-loop; other site 318167009559 ATP binding site [chemical binding]; other site 318167009560 Q-loop/lid; other site 318167009561 ABC transporter signature motif; other site 318167009562 Walker B; other site 318167009563 D-loop; other site 318167009564 H-loop/switch region; other site 318167009565 TOBE domain; Region: TOBE_2; pfam08402 318167009566 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 318167009567 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 318167009568 putative aminotransferase; Validated; Region: PRK07480 318167009569 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 318167009570 inhibitor-cofactor binding pocket; inhibition site 318167009571 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167009572 catalytic residue [active] 318167009573 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 318167009574 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 318167009575 Peptidase C26; Region: Peptidase_C26; pfam07722 318167009576 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 318167009577 catalytic triad [active] 318167009578 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 318167009579 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 318167009580 non-specific DNA binding site [nucleotide binding]; other site 318167009581 salt bridge; other site 318167009582 sequence-specific DNA binding site [nucleotide binding]; other site 318167009583 Cupin domain; Region: Cupin_2; pfam07883 318167009584 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 318167009585 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 318167009586 Transposase; Region: HTH_Tnp_1; pfam01527 318167009587 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 318167009588 putative transposase OrfB; Reviewed; Region: PHA02517 318167009589 HTH-like domain; Region: HTH_21; pfam13276 318167009590 Integrase core domain; Region: rve; pfam00665 318167009591 Integrase core domain; Region: rve_3; pfam13683 318167009592 Predicted periplasmic protein [Function unknown]; Region: COG3904 318167009593 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 318167009594 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 318167009595 active site residue [active] 318167009596 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 318167009597 active site residue [active] 318167009598 VanZ like family; Region: VanZ; cl01971 318167009599 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 318167009600 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 318167009601 NAD(P) binding site [chemical binding]; other site 318167009602 catalytic residues [active] 318167009603 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 318167009604 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 318167009605 inhibitor-cofactor binding pocket; inhibition site 318167009606 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167009607 catalytic residue [active] 318167009608 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 318167009609 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 318167009610 tetrameric interface [polypeptide binding]; other site 318167009611 NAD binding site [chemical binding]; other site 318167009612 catalytic residues [active] 318167009613 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 318167009614 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 318167009615 Protein of unknown function (DUF3634); Region: DUF3634; pfam12321 318167009616 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 318167009617 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 318167009618 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 318167009619 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 318167009620 S-adenosylmethionine binding site [chemical binding]; other site 318167009621 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 318167009622 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 318167009623 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 318167009624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167009625 NAD(P) binding site [chemical binding]; other site 318167009626 active site 318167009627 SnoaL-like domain; Region: SnoaL_2; pfam12680 318167009628 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 318167009629 NnrS protein; Region: NnrS; pfam05940 318167009630 DNA photolyase; Region: DNA_photolyase; pfam00875 318167009631 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 318167009632 Protein of unknown function (DUF523); Region: DUF523; pfam04463 318167009633 Uncharacterized conserved protein [Function unknown]; Region: COG3272 318167009634 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 318167009635 Domain of unknown function (DUF368); Region: DUF368; pfam04018 318167009636 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 318167009637 CoenzymeA binding site [chemical binding]; other site 318167009638 subunit interaction site [polypeptide binding]; other site 318167009639 PHB binding site; other site 318167009640 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 318167009641 SPFH domain / Band 7 family; Region: Band_7; pfam01145 318167009642 Predicted membrane protein [Function unknown]; Region: COG2311 318167009643 Protein of unknown function (DUF418); Region: DUF418; pfam04235 318167009644 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 318167009645 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 318167009646 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 318167009647 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 318167009648 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 318167009649 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 318167009650 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 318167009651 active site 318167009652 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 318167009653 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 318167009654 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 318167009655 active site 318167009656 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 318167009657 alternate F1F0 ATPase, F1 subunit beta; Region: alt_F1F0_F1_bet; TIGR03305 318167009658 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 318167009659 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 318167009660 alpha subunit interaction interface [polypeptide binding]; other site 318167009661 Walker A motif; other site 318167009662 ATP binding site [chemical binding]; other site 318167009663 Walker B motif; other site 318167009664 inhibitor binding site; inhibition site 318167009665 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 318167009666 F0F1 ATP synthase subunit epsilon; Validated; Region: PRK06228 318167009667 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 318167009668 gamma subunit interface [polypeptide binding]; other site 318167009669 epsilon subunit interface [polypeptide binding]; other site 318167009670 LBP interface [polypeptide binding]; other site 318167009671 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 318167009672 N-ATPase, AtpR subunit; Region: AtpR; pfam12966 318167009673 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 318167009674 alternate F1F0 ATPase, F0 subunit A; Region: altF1_A; TIGR03306 318167009675 F0F1 ATP synthase subunit C; Provisional; Region: PRK13468 318167009676 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 318167009677 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 318167009678 alternate F1F0 ATPase, F1 subunit alpha; Region: alt_F1F0_F1_al; TIGR03324 318167009679 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 318167009680 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 318167009681 beta subunit interaction interface [polypeptide binding]; other site 318167009682 Walker A motif; other site 318167009683 ATP binding site [chemical binding]; other site 318167009684 Walker B motif; other site 318167009685 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 318167009686 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 318167009687 core domain interface [polypeptide binding]; other site 318167009688 delta subunit interface [polypeptide binding]; other site 318167009689 epsilon subunit interface [polypeptide binding]; other site 318167009690 MltA-interacting protein MipA; Region: MipA; cl01504 318167009691 Predicted periplasmic protein [Function unknown]; Region: COG3904 318167009692 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 318167009693 dimerization interface [polypeptide binding]; other site 318167009694 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 318167009695 dimer interface [polypeptide binding]; other site 318167009696 phosphorylation site [posttranslational modification] 318167009697 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 318167009698 ATP binding site [chemical binding]; other site 318167009699 Mg2+ binding site [ion binding]; other site 318167009700 G-X-G motif; other site 318167009701 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 318167009702 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167009703 active site 318167009704 phosphorylation site [posttranslational modification] 318167009705 intermolecular recognition site; other site 318167009706 dimerization interface [polypeptide binding]; other site 318167009707 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 318167009708 DNA binding site [nucleotide binding] 318167009709 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 318167009710 MltA-interacting protein MipA; Region: MipA; cl01504 318167009711 MarR family; Region: MarR_2; pfam12802 318167009712 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 318167009713 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 318167009714 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 318167009715 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 318167009716 ATP binding site [chemical binding]; other site 318167009717 Mg++ binding site [ion binding]; other site 318167009718 motif III; other site 318167009719 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 318167009720 nucleotide binding region [chemical binding]; other site 318167009721 ATP-binding site [chemical binding]; other site 318167009722 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 318167009723 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 318167009724 putative catalytic residues [active] 318167009725 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 318167009726 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167009727 ATP-grasp domain; Region: ATP-grasp; pfam02222 318167009728 glycerate dehydrogenase; Provisional; Region: PRK06487 318167009729 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 318167009730 putative ligand binding site [chemical binding]; other site 318167009731 putative NAD binding site [chemical binding]; other site 318167009732 catalytic site [active] 318167009733 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 318167009734 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 318167009735 putative metal binding site [ion binding]; other site 318167009736 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 318167009737 HSP70 interaction site [polypeptide binding]; other site 318167009738 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 318167009739 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 318167009740 Substrate binding site; other site 318167009741 metal-binding site 318167009742 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 318167009743 Phosphotransferase enzyme family; Region: APH; pfam01636 318167009744 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 318167009745 OstA-like protein; Region: OstA; cl00844 318167009746 Organic solvent tolerance protein; Region: OstA_C; pfam04453 318167009747 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 318167009748 SurA N-terminal domain; Region: SurA_N; pfam09312 318167009749 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 318167009750 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 318167009751 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 318167009752 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 318167009753 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 318167009754 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 318167009755 S-adenosylmethionine binding site [chemical binding]; other site 318167009756 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 318167009757 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 318167009758 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 318167009759 active site 318167009760 metal binding site [ion binding]; metal-binding site 318167009761 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 318167009762 dimerization interface [polypeptide binding]; other site 318167009763 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167009764 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167009765 dimer interface [polypeptide binding]; other site 318167009766 putative CheW interface [polypeptide binding]; other site 318167009767 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 318167009768 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 318167009769 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 318167009770 NADP+ binding site [chemical binding]; other site 318167009771 folate binding site [chemical binding]; other site 318167009772 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 318167009773 Uncharacterized conserved protein [Function unknown]; Region: COG2966 318167009774 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 318167009775 GTPase CgtA; Reviewed; Region: obgE; PRK12298 318167009776 GTP1/OBG; Region: GTP1_OBG; pfam01018 318167009777 Obg GTPase; Region: Obg; cd01898 318167009778 G1 box; other site 318167009779 GTP/Mg2+ binding site [chemical binding]; other site 318167009780 Switch I region; other site 318167009781 G2 box; other site 318167009782 G3 box; other site 318167009783 Switch II region; other site 318167009784 G4 box; other site 318167009785 G5 box; other site 318167009786 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 318167009787 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 318167009788 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 318167009789 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 318167009790 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 318167009791 substrate binding pocket [chemical binding]; other site 318167009792 chain length determination region; other site 318167009793 substrate-Mg2+ binding site; other site 318167009794 catalytic residues [active] 318167009795 aspartate-rich region 1; other site 318167009796 active site lid residues [active] 318167009797 aspartate-rich region 2; other site 318167009798 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 318167009799 ligand binding site [chemical binding]; other site 318167009800 active site 318167009801 UGI interface [polypeptide binding]; other site 318167009802 catalytic site [active] 318167009803 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 318167009804 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 318167009805 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 318167009806 DsbD alpha interface [polypeptide binding]; other site 318167009807 catalytic residues [active] 318167009808 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318167009809 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 318167009810 N-terminal plug; other site 318167009811 ligand-binding site [chemical binding]; other site 318167009812 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 318167009813 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 318167009814 acyl-activating enzyme (AAE) consensus motif; other site 318167009815 putative AMP binding site [chemical binding]; other site 318167009816 putative active site [active] 318167009817 putative CoA binding site [chemical binding]; other site 318167009818 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 318167009819 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 318167009820 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318167009821 Walker A/P-loop; other site 318167009822 ATP binding site [chemical binding]; other site 318167009823 Q-loop/lid; other site 318167009824 ABC transporter signature motif; other site 318167009825 Walker B; other site 318167009826 D-loop; other site 318167009827 H-loop/switch region; other site 318167009828 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 318167009829 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 318167009830 S-adenosylmethionine binding site [chemical binding]; other site 318167009831 Transcriptional regulators [Transcription]; Region: FadR; COG2186 318167009832 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318167009833 DNA-binding site [nucleotide binding]; DNA binding site 318167009834 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 318167009835 Alginate lyase; Region: Alginate_lyase; pfam05426 318167009836 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 318167009837 Cupin domain; Region: Cupin_2; pfam07883 318167009838 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 318167009839 D-galactonate transporter; Region: 2A0114; TIGR00893 318167009840 putative substrate translocation pore; other site 318167009841 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 318167009842 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 318167009843 substrate binding site [chemical binding]; other site 318167009844 ATP binding site [chemical binding]; other site 318167009845 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 318167009846 S-adenosylmethionine binding site [chemical binding]; other site 318167009847 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 318167009848 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 318167009849 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 318167009850 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 318167009851 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 318167009852 substrate binding site [chemical binding]; other site 318167009853 Acetyl-coenzyme A transporter 1; Region: Acatn; pfam13000 318167009854 muropeptide transporter; Reviewed; Region: ampG; PRK11902 318167009855 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 318167009856 putative substrate translocation pore; other site 318167009857 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 318167009858 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 318167009859 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 318167009860 Putative catalytic NodB homology domain of gellan lyase and similar proteins; Region: CE4_GLA_like_6s; cd10967 318167009861 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 318167009862 putative active site [active] 318167009863 putative metal binding site [ion binding]; other site 318167009864 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 318167009865 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 318167009866 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 318167009867 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 318167009868 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 318167009869 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 318167009870 dimerization interface [polypeptide binding]; other site 318167009871 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 318167009872 dimer interface [polypeptide binding]; other site 318167009873 phosphorylation site [posttranslational modification] 318167009874 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 318167009875 ATP binding site [chemical binding]; other site 318167009876 Mg2+ binding site [ion binding]; other site 318167009877 G-X-G motif; other site 318167009878 Response regulator receiver domain; Region: Response_reg; pfam00072 318167009879 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167009880 active site 318167009881 phosphorylation site [posttranslational modification] 318167009882 intermolecular recognition site; other site 318167009883 dimerization interface [polypeptide binding]; other site 318167009884 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 318167009885 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 318167009886 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 318167009887 heme binding site [chemical binding]; other site 318167009888 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 318167009889 Beta-lactamase; Region: Beta-lactamase; pfam00144 318167009890 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 318167009891 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 318167009892 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 318167009893 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 318167009894 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 318167009895 molybdopterin cofactor binding site; other site 318167009896 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 318167009897 putative molybdopterin cofactor binding site; other site 318167009898 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 318167009899 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 318167009900 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 318167009901 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 318167009902 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...; Region: Lipase_3; cd00519 318167009903 active site flap/lid [active] 318167009904 nucleophilic elbow; other site 318167009905 catalytic triad [active] 318167009906 FOG: CBS domain [General function prediction only]; Region: COG0517 318167009907 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 318167009908 Domon-like ligand-binding domains; Region: DOMON_like; cd00241 318167009909 putative ligand binding site [chemical binding]; other site 318167009910 malate synthase G; Provisional; Region: PRK02999 318167009911 active site 318167009912 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167009913 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167009914 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 318167009915 substrate binding pocket [chemical binding]; other site 318167009916 dimerization interface [polypeptide binding]; other site 318167009917 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 318167009918 tetramer interface [polypeptide binding]; other site 318167009919 active site 318167009920 Mg2+/Mn2+ binding site [ion binding]; other site 318167009921 isocitrate lyase; Region: PLN02892 318167009922 Nuclease-related domain; Region: NERD; pfam08378 318167009923 Predicted archaeal sugar kinases [General function prediction only]; Region: COG1907 318167009924 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 318167009925 putative active site [active] 318167009926 AAA domain; Region: AAA_17; pfam13207 318167009927 Transposase; Region: HTH_Tnp_1; pfam01527 318167009928 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 318167009929 putative transposase OrfB; Reviewed; Region: PHA02517 318167009930 HTH-like domain; Region: HTH_21; pfam13276 318167009931 Integrase core domain; Region: rve; pfam00665 318167009932 Integrase core domain; Region: rve_3; pfam13683 318167009933 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318167009934 glycine dehydrogenase; Provisional; Region: PRK05367 318167009935 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 318167009936 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318167009937 catalytic residue [active] 318167009938 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 318167009939 tetramer interface [polypeptide binding]; other site 318167009940 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167009941 catalytic residue [active] 318167009942 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 318167009943 lipoyl attachment site [posttranslational modification]; other site 318167009944 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 318167009945 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 318167009946 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 318167009947 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 318167009948 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 318167009949 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 318167009950 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 318167009951 Cell division protein ZapA; Region: ZapA; pfam05164 318167009952 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 318167009953 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 318167009954 catalytic site [active] 318167009955 active site 318167009956 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 318167009957 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 318167009958 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 318167009959 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 318167009960 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 318167009961 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 318167009962 homodimer interface [polypeptide binding]; other site 318167009963 substrate-cofactor binding pocket; other site 318167009964 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167009965 catalytic residue [active] 318167009966 dihydromonapterin reductase; Provisional; Region: PRK06483 318167009967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167009968 NAD(P) binding site [chemical binding]; other site 318167009969 active site 318167009970 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 318167009971 active site 318167009972 D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase; Provisional; Region: folX; PRK11245 318167009973 active site 318167009974 Protein of unknown function, DUF393; Region: DUF393; pfam04134 318167009975 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167009976 C factor cell-cell signaling protein; Provisional; Region: PRK09009 318167009977 NAD(P) binding site [chemical binding]; other site 318167009978 active site 318167009979 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 318167009980 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167009981 NAD(P) binding site [chemical binding]; other site 318167009982 active site 318167009983 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 318167009984 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 318167009985 substrate binding pocket [chemical binding]; other site 318167009986 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 318167009987 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318167009988 putative substrate translocation pore; other site 318167009989 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 318167009990 Na binding site [ion binding]; other site 318167009991 PAS domain; Region: PAS; smart00091 318167009992 PAS fold; Region: PAS_7; pfam12860 318167009993 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318167009994 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 318167009995 dimer interface [polypeptide binding]; other site 318167009996 phosphorylation site [posttranslational modification] 318167009997 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 318167009998 ATP binding site [chemical binding]; other site 318167009999 Mg2+ binding site [ion binding]; other site 318167010000 G-X-G motif; other site 318167010001 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 318167010002 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167010003 active site 318167010004 phosphorylation site [posttranslational modification] 318167010005 intermolecular recognition site; other site 318167010006 dimerization interface [polypeptide binding]; other site 318167010007 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318167010008 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167010009 active site 318167010010 phosphorylation site [posttranslational modification] 318167010011 intermolecular recognition site; other site 318167010012 dimerization interface [polypeptide binding]; other site 318167010013 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 318167010014 DNA binding residues [nucleotide binding] 318167010015 dimerization interface [polypeptide binding]; other site 318167010016 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318167010017 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 318167010018 N-terminal plug; other site 318167010019 ligand-binding site [chemical binding]; other site 318167010020 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 318167010021 malate dehydrogenase; Provisional; Region: PRK05086 318167010022 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 318167010023 NAD binding site [chemical binding]; other site 318167010024 dimerization interface [polypeptide binding]; other site 318167010025 Substrate binding site [chemical binding]; other site 318167010026 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 318167010027 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167010028 Coenzyme A binding pocket [chemical binding]; other site 318167010029 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 318167010030 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 318167010031 RNA/DNA hybrid binding site [nucleotide binding]; other site 318167010032 active site 318167010033 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 318167010034 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 318167010035 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167010036 Coenzyme A binding pocket [chemical binding]; other site 318167010037 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 318167010038 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 318167010039 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 318167010040 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 318167010041 active site 318167010042 catalytic tetrad [active] 318167010043 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 318167010044 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 318167010045 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318167010046 catalytic residue [active] 318167010047 Fe-S metabolism associated domain; Region: SufE; cl00951 318167010048 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 318167010049 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 318167010050 active site 318167010051 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 318167010052 ligand-binding site [chemical binding]; other site 318167010053 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 318167010054 TrkA-C domain; Region: TrkA_C; pfam02080 318167010055 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 318167010056 TrkA-C domain; Region: TrkA_C; pfam02080 318167010057 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 318167010058 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 318167010059 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 318167010060 CysD dimerization site [polypeptide binding]; other site 318167010061 G1 box; other site 318167010062 putative GEF interaction site [polypeptide binding]; other site 318167010063 GTP/Mg2+ binding site [chemical binding]; other site 318167010064 Switch I region; other site 318167010065 G2 box; other site 318167010066 G3 box; other site 318167010067 Switch II region; other site 318167010068 G4 box; other site 318167010069 G5 box; other site 318167010070 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 318167010071 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 318167010072 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 318167010073 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 318167010074 Active Sites [active] 318167010075 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 318167010076 active site 318167010077 SAM binding site [chemical binding]; other site 318167010078 homodimer interface [polypeptide binding]; other site 318167010079 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 318167010080 dimerization interface [polypeptide binding]; other site 318167010081 substrate binding site [chemical binding]; other site 318167010082 active site 318167010083 calcium binding site [ion binding]; other site 318167010084 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 318167010085 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 318167010086 Active Sites [active] 318167010087 sulfite reductase subunit beta; Provisional; Region: PRK13504 318167010088 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 318167010089 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 318167010090 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 318167010091 Flavodoxin; Region: Flavodoxin_1; pfam00258 318167010092 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 318167010093 FAD binding pocket [chemical binding]; other site 318167010094 FAD binding motif [chemical binding]; other site 318167010095 catalytic residues [active] 318167010096 NAD binding pocket [chemical binding]; other site 318167010097 phosphate binding motif [ion binding]; other site 318167010098 beta-alpha-beta structure motif; other site 318167010099 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 318167010100 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 318167010101 ligand binding site [chemical binding]; other site 318167010102 homodimer interface [polypeptide binding]; other site 318167010103 NAD(P) binding site [chemical binding]; other site 318167010104 trimer interface B [polypeptide binding]; other site 318167010105 trimer interface A [polypeptide binding]; other site 318167010106 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 318167010107 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 318167010108 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 318167010109 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 318167010110 putative active site [active] 318167010111 PAS fold; Region: PAS_3; pfam08447 318167010112 heme pocket [chemical binding]; other site 318167010113 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167010114 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167010115 metal binding site [ion binding]; metal-binding site 318167010116 active site 318167010117 I-site; other site 318167010118 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 318167010119 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167010120 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318167010121 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 318167010122 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 318167010123 putative ribose interaction site [chemical binding]; other site 318167010124 putative ADP binding site [chemical binding]; other site 318167010125 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 318167010126 active site 318167010127 HIGH motif; other site 318167010128 nucleotide binding site [chemical binding]; other site 318167010129 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 318167010130 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 318167010131 putative acyl-acceptor binding pocket; other site 318167010132 Ribonucleotide reductase, alpha subunit [Nucleotide transport and metabolism]; Region: NrdA; COG0209 318167010133 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 318167010134 putative FMN binding site [chemical binding]; other site 318167010135 putative dimer interface [polypeptide binding]; other site 318167010136 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 318167010137 NADH(P)-binding; Region: NAD_binding_10; pfam13460 318167010138 NAD binding site [chemical binding]; other site 318167010139 active site 318167010140 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 318167010141 DNA binding residues [nucleotide binding] 318167010142 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 318167010143 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 318167010144 catalytic loop [active] 318167010145 iron binding site [ion binding]; other site 318167010146 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 318167010147 FAD binding pocket [chemical binding]; other site 318167010148 FAD binding motif [chemical binding]; other site 318167010149 phosphate binding motif [ion binding]; other site 318167010150 beta-alpha-beta structure motif; other site 318167010151 NAD binding pocket [chemical binding]; other site 318167010152 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 318167010153 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 318167010154 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 318167010155 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 318167010156 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 318167010157 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 318167010158 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 318167010159 E3 interaction surface; other site 318167010160 lipoyl attachment site [posttranslational modification]; other site 318167010161 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 318167010162 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 318167010163 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 318167010164 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318167010165 Walker A/P-loop; other site 318167010166 ATP binding site [chemical binding]; other site 318167010167 Q-loop/lid; other site 318167010168 ABC transporter signature motif; other site 318167010169 Walker B; other site 318167010170 D-loop; other site 318167010171 H-loop/switch region; other site 318167010172 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 318167010173 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 318167010174 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318167010175 Walker A/P-loop; other site 318167010176 ATP binding site [chemical binding]; other site 318167010177 Q-loop/lid; other site 318167010178 ABC transporter signature motif; other site 318167010179 Walker B; other site 318167010180 D-loop; other site 318167010181 H-loop/switch region; other site 318167010182 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 318167010183 Protein of unknown function (DUF3626); Region: DUF3626; pfam12294 318167010184 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 318167010185 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 318167010186 ATP binding site [chemical binding]; other site 318167010187 Mg++ binding site [ion binding]; other site 318167010188 motif III; other site 318167010189 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 318167010190 nucleotide binding region [chemical binding]; other site 318167010191 ATP-binding site [chemical binding]; other site 318167010192 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 318167010193 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 318167010194 ATP binding site [chemical binding]; other site 318167010195 Mg++ binding site [ion binding]; other site 318167010196 motif III; other site 318167010197 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 318167010198 nucleotide binding region [chemical binding]; other site 318167010199 ATP-binding site [chemical binding]; other site 318167010200 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 318167010201 putative RNA binding site [nucleotide binding]; other site 318167010202 Pirin-related protein [General function prediction only]; Region: COG1741 318167010203 Pirin; Region: Pirin; pfam02678 318167010204 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 318167010205 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 318167010206 PAS fold; Region: PAS_3; pfam08447 318167010207 putative active site [active] 318167010208 heme pocket [chemical binding]; other site 318167010209 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 318167010210 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167010211 dimer interface [polypeptide binding]; other site 318167010212 putative CheW interface [polypeptide binding]; other site 318167010213 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 318167010214 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 318167010215 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 318167010216 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318167010217 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 318167010218 N-terminal plug; other site 318167010219 ligand-binding site [chemical binding]; other site 318167010220 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167010221 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167010222 metal binding site [ion binding]; metal-binding site 318167010223 active site 318167010224 I-site; other site 318167010225 Predicted membrane protein (DUF2306); Region: DUF2306; pfam10067 318167010226 inner membrane transport permease; Provisional; Region: PRK15066 318167010227 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 318167010228 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 318167010229 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 318167010230 Walker A/P-loop; other site 318167010231 ATP binding site [chemical binding]; other site 318167010232 Q-loop/lid; other site 318167010233 ABC transporter signature motif; other site 318167010234 Walker B; other site 318167010235 D-loop; other site 318167010236 H-loop/switch region; other site 318167010237 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318167010238 active site 318167010239 aromatic acid decarboxylase; Validated; Region: PRK05920 318167010240 Flavoprotein; Region: Flavoprotein; pfam02441 318167010241 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 318167010242 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 318167010243 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318167010244 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318167010245 Predicted membrane protein [Function unknown]; Region: COG4392 318167010246 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 318167010247 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 318167010248 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 318167010249 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 318167010250 FOG: WD40 repeat [General function prediction only]; Region: COG2319 318167010251 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 318167010252 structural tetrad; other site 318167010253 SlyX; Region: SlyX; pfam04102 318167010254 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 318167010255 active site 318167010256 catalytic residues [active] 318167010257 metal binding site [ion binding]; metal-binding site 318167010258 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 318167010259 uncharacterized proteobacterial lipoprotein; Region: lp_; TIGR02722 318167010260 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 318167010261 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 318167010262 Zn binding site [ion binding]; other site 318167010263 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 318167010264 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 318167010265 putative catalytic site [active] 318167010266 putative metal binding site [ion binding]; other site 318167010267 putative metal binding site [ion binding]; other site 318167010268 putative phosphate binding site [ion binding]; other site 318167010269 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 318167010270 putative catalytic site [active] 318167010271 putative phosphate binding site [ion binding]; other site 318167010272 putative metal binding site [ion binding]; other site 318167010273 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 318167010274 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 318167010275 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 318167010276 active site 318167010277 motif I; other site 318167010278 motif II; other site 318167010279 Tryptophan-rich protein (DUF2389); Region: DUF2389; pfam09493 318167010280 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 318167010281 Sel1-like repeats; Region: SEL1; smart00671 318167010282 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 318167010283 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 318167010284 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 318167010285 HlyD family secretion protein; Region: HlyD_3; pfam13437 318167010286 transcriptional regulator SlyA; Provisional; Region: PRK03573 318167010287 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 318167010288 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 318167010289 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 318167010290 GAF domain; Region: GAF; pfam01590 318167010291 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 318167010292 Walker A motif; other site 318167010293 ATP binding site [chemical binding]; other site 318167010294 Walker B motif; other site 318167010295 arginine finger; other site 318167010296 L,D-transpeptidase; Provisional; Region: PRK10260 318167010297 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318167010298 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 318167010299 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 318167010300 Predicted ATPase [General function prediction only]; Region: COG1485 318167010301 Protein of unknown function (DUF3081); Region: DUF3081; pfam11280 318167010302 Domain of unknown function (DUF897); Region: DUF897; cl01312 318167010303 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 318167010304 GAF domain; Region: GAF; pfam01590 318167010305 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167010306 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167010307 metal binding site [ion binding]; metal-binding site 318167010308 active site 318167010309 I-site; other site 318167010310 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 318167010311 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 318167010312 metal binding triad; other site 318167010313 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 318167010314 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 318167010315 metal binding triad; other site 318167010316 spermidine synthase; Provisional; Region: PRK03612 318167010317 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 318167010318 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 318167010319 PspA/IM30 family; Region: PspA_IM30; pfam04012 318167010320 Ion channel; Region: Ion_trans_2; pfam07885 318167010321 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 318167010322 Transglycosylase; Region: Transgly; pfam00912 318167010323 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 318167010324 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 318167010325 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 318167010326 ATP binding site [chemical binding]; other site 318167010327 putative Mg++ binding site [ion binding]; other site 318167010328 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 318167010329 nucleotide binding region [chemical binding]; other site 318167010330 ATP-binding site [chemical binding]; other site 318167010331 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 318167010332 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 318167010333 PAS fold; Region: PAS_4; pfam08448 318167010334 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167010335 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167010336 metal binding site [ion binding]; metal-binding site 318167010337 active site 318167010338 I-site; other site 318167010339 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 318167010340 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 318167010341 aminopeptidase B; Provisional; Region: PRK05015 318167010342 Peptidase; Region: DUF3663; pfam12404 318167010343 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 318167010344 interface (dimer of trimers) [polypeptide binding]; other site 318167010345 Substrate-binding/catalytic site; other site 318167010346 Zn-binding sites [ion binding]; other site 318167010347 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 318167010348 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 318167010349 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 318167010350 active site 318167010351 HIGH motif; other site 318167010352 nucleotide binding site [chemical binding]; other site 318167010353 active site 318167010354 KMSKS motif; other site 318167010355 Poly A polymerase head domain; Region: PolyA_pol; pfam01743 318167010356 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 318167010357 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 318167010358 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 318167010359 catalytic center binding site [active] 318167010360 ATP binding site [chemical binding]; other site 318167010361 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 318167010362 oligomerization interface [polypeptide binding]; other site 318167010363 active site 318167010364 metal binding site [ion binding]; metal-binding site 318167010365 Pantoate-beta-alanine ligase; Region: PanC; cd00560 318167010366 pantoate--beta-alanine ligase; Region: panC; TIGR00018 318167010367 active site 318167010368 ATP-binding site [chemical binding]; other site 318167010369 pantoate-binding site; other site 318167010370 HXXH motif; other site 318167010371 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 318167010372 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 318167010373 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 318167010374 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318167010375 Walker A/P-loop; other site 318167010376 ATP binding site [chemical binding]; other site 318167010377 Q-loop/lid; other site 318167010378 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318167010379 ABC transporter; Region: ABC_tran_2; pfam12848 318167010380 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318167010381 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 318167010382 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 318167010383 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 318167010384 putative hydrolase; Provisional; Region: PRK10985 318167010385 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 318167010386 phosphoribulokinase; Provisional; Region: PRK15453 318167010387 active site 318167010388 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 318167010389 Sel1 repeat; Region: Sel1; cl02723 318167010390 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 318167010391 TPR motif; other site 318167010392 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 318167010393 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 318167010394 ligand binding site [chemical binding]; other site 318167010395 flexible hinge region; other site 318167010396 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 318167010397 putative switch regulator; other site 318167010398 non-specific DNA interactions [nucleotide binding]; other site 318167010399 DNA binding site [nucleotide binding] 318167010400 sequence specific DNA binding site [nucleotide binding]; other site 318167010401 putative cAMP binding site [chemical binding]; other site 318167010402 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318167010403 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167010404 active site 318167010405 phosphorylation site [posttranslational modification] 318167010406 intermolecular recognition site; other site 318167010407 dimerization interface [polypeptide binding]; other site 318167010408 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 318167010409 DNA binding site [nucleotide binding] 318167010410 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318167010411 HAMP domain; Region: HAMP; pfam00672 318167010412 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 318167010413 dimer interface [polypeptide binding]; other site 318167010414 phosphorylation site [posttranslational modification] 318167010415 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 318167010416 ATP binding site [chemical binding]; other site 318167010417 Mg2+ binding site [ion binding]; other site 318167010418 G-X-G motif; other site 318167010419 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 318167010420 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 318167010421 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 318167010422 NAD(P) binding site [chemical binding]; other site 318167010423 catalytic residues [active] 318167010424 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 318167010425 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 318167010426 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 318167010427 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 318167010428 inhibitor-cofactor binding pocket; inhibition site 318167010429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167010430 catalytic residue [active] 318167010431 HDOD domain; Region: HDOD; pfam08668 318167010432 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 318167010433 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 318167010434 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 318167010435 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 318167010436 glutamine binding [chemical binding]; other site 318167010437 catalytic triad [active] 318167010438 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 318167010439 stringent starvation protein A; Provisional; Region: sspA; PRK09481 318167010440 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 318167010441 C-terminal domain interface [polypeptide binding]; other site 318167010442 putative GSH binding site (G-site) [chemical binding]; other site 318167010443 dimer interface [polypeptide binding]; other site 318167010444 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 318167010445 dimer interface [polypeptide binding]; other site 318167010446 N-terminal domain interface [polypeptide binding]; other site 318167010447 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 318167010448 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 318167010449 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 318167010450 Qi binding site; other site 318167010451 intrachain domain interface; other site 318167010452 interchain domain interface [polypeptide binding]; other site 318167010453 heme bH binding site [chemical binding]; other site 318167010454 heme bL binding site [chemical binding]; other site 318167010455 Qo binding site; other site 318167010456 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 318167010457 interchain domain interface [polypeptide binding]; other site 318167010458 intrachain domain interface; other site 318167010459 Qi binding site; other site 318167010460 Qo binding site; other site 318167010461 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 318167010462 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 318167010463 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 318167010464 [2Fe-2S] cluster binding site [ion binding]; other site 318167010465 FtsH protease regulator HflC; Provisional; Region: PRK11029 318167010466 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 318167010467 FtsH protease regulator HflK; Provisional; Region: PRK10930 318167010468 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 318167010469 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 318167010470 ParB-like nuclease domain; Region: ParBc; cl02129 318167010471 GTPase HflX; Provisional; Region: PRK11058 318167010472 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 318167010473 HflX GTPase family; Region: HflX; cd01878 318167010474 G1 box; other site 318167010475 GTP/Mg2+ binding site [chemical binding]; other site 318167010476 Switch I region; other site 318167010477 G2 box; other site 318167010478 G3 box; other site 318167010479 Switch II region; other site 318167010480 G4 box; other site 318167010481 G5 box; other site 318167010482 bacterial Hfq-like; Region: Hfq; cd01716 318167010483 hexamer interface [polypeptide binding]; other site 318167010484 Sm1 motif; other site 318167010485 RNA binding site [nucleotide binding]; other site 318167010486 Sm2 motif; other site 318167010487 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 318167010488 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 318167010489 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 318167010490 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 318167010491 ATP binding site [chemical binding]; other site 318167010492 Mg2+ binding site [ion binding]; other site 318167010493 G-X-G motif; other site 318167010494 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 318167010495 ATP binding site [chemical binding]; other site 318167010496 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 318167010497 AMIN domain; Region: AMIN; pfam11741 318167010498 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 318167010499 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 318167010500 active site 318167010501 metal binding site [ion binding]; metal-binding site 318167010502 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 318167010503 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318167010504 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 318167010505 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 318167010506 catalytic site [active] 318167010507 putative active site [active] 318167010508 putative substrate binding site [chemical binding]; other site 318167010509 dimer interface [polypeptide binding]; other site 318167010510 GTPase RsgA; Reviewed; Region: PRK12288 318167010511 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 318167010512 RNA binding site [nucleotide binding]; other site 318167010513 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 318167010514 GTPase/Zn-binding domain interface [polypeptide binding]; other site 318167010515 GTP/Mg2+ binding site [chemical binding]; other site 318167010516 G4 box; other site 318167010517 G5 box; other site 318167010518 G1 box; other site 318167010519 Switch I region; other site 318167010520 G2 box; other site 318167010521 G3 box; other site 318167010522 Switch II region; other site 318167010523 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 318167010524 rarD protein; Region: rarD; TIGR00688 318167010525 EamA-like transporter family; Region: EamA; pfam00892 318167010526 EamA-like transporter family; Region: EamA; pfam00892 318167010527 putative mechanosensitive channel protein; Provisional; Region: PRK10929 318167010528 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 318167010529 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318167010530 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 318167010531 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 318167010532 active site 318167010533 catalytic site [active] 318167010534 metal binding site [ion binding]; metal-binding site 318167010535 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 318167010536 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 318167010537 NAD binding site [chemical binding]; other site 318167010538 ligand binding site [chemical binding]; other site 318167010539 catalytic site [active] 318167010540 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 318167010541 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 318167010542 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 318167010543 CAP-like domain; other site 318167010544 active site 318167010545 primary dimer interface [polypeptide binding]; other site 318167010546 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 318167010547 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 318167010548 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 318167010549 ATP binding site [chemical binding]; other site 318167010550 Mg2+ binding site [ion binding]; other site 318167010551 G-X-G motif; other site 318167010552 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 318167010553 anchoring element; other site 318167010554 dimer interface [polypeptide binding]; other site 318167010555 ATP binding site [chemical binding]; other site 318167010556 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 318167010557 active site 318167010558 metal binding site [ion binding]; metal-binding site 318167010559 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 318167010560 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 318167010561 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167010562 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 318167010563 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 318167010564 active site 318167010565 metal binding site [ion binding]; metal-binding site 318167010566 hexamer interface [polypeptide binding]; other site 318167010567 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 318167010568 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 318167010569 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 318167010570 dimer interface [polypeptide binding]; other site 318167010571 ADP-ribose binding site [chemical binding]; other site 318167010572 active site 318167010573 nudix motif; other site 318167010574 metal binding site [ion binding]; metal-binding site 318167010575 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 318167010576 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 318167010577 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 318167010578 Protein of unknown function (DUF461); Region: DUF461; pfam04314 318167010579 enoyl-CoA hydratase; Provisional; Region: PRK06688 318167010580 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 318167010581 substrate binding site [chemical binding]; other site 318167010582 oxyanion hole (OAH) forming residues; other site 318167010583 trimer interface [polypeptide binding]; other site 318167010584 PspC domain; Region: PspC; pfam04024 318167010585 Integrase core domain; Region: rve; pfam00665 318167010586 Integrase core domain; Region: rve_3; pfam13683 318167010587 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 318167010588 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 318167010589 FMN binding site [chemical binding]; other site 318167010590 active site 318167010591 catalytic residues [active] 318167010592 substrate binding site [chemical binding]; other site 318167010593 Cupin domain; Region: Cupin_2; cl17218 318167010594 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 318167010595 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 318167010596 alanine racemase; Reviewed; Region: alr; PRK00053 318167010597 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 318167010598 active site 318167010599 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318167010600 substrate binding site [chemical binding]; other site 318167010601 catalytic residues [active] 318167010602 dimer interface [polypeptide binding]; other site 318167010603 replicative DNA helicase; Provisional; Region: PRK08006 318167010604 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 318167010605 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 318167010606 Walker A motif; other site 318167010607 ATP binding site [chemical binding]; other site 318167010608 Walker B motif; other site 318167010609 DNA binding loops [nucleotide binding] 318167010610 Peptidase S46; Region: Peptidase_S46; pfam10459 318167010611 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 318167010612 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 318167010613 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 318167010614 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 318167010615 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 318167010616 primosomal replication protein N; Provisional; Region: PRK02801 318167010617 generic binding surface II; other site 318167010618 generic binding surface I; other site 318167010619 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 318167010620 Protein of unknown function, DUF481; Region: DUF481; pfam04338 318167010621 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 318167010622 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318167010623 putative substrate translocation pore; other site 318167010624 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 318167010625 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 318167010626 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 318167010627 exoribonuclease R; Provisional; Region: PRK11642 318167010628 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 318167010629 RNB domain; Region: RNB; pfam00773 318167010630 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 318167010631 RNA binding site [nucleotide binding]; other site 318167010632 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 318167010633 Sel1-like repeats; Region: SEL1; smart00671 318167010634 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 318167010635 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 318167010636 GDP-binding site [chemical binding]; other site 318167010637 ACT binding site; other site 318167010638 IMP binding site; other site 318167010639 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 318167010640 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 318167010641 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 318167010642 23S rRNA interface [nucleotide binding]; other site 318167010643 L3 interface [polypeptide binding]; other site 318167010644 Predicted ATPase [General function prediction only]; Region: COG1485 318167010645 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 318167010646 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 318167010647 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 318167010648 protein binding site [polypeptide binding]; other site 318167010649 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 318167010650 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 318167010651 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 318167010652 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 318167010653 protein binding site [polypeptide binding]; other site 318167010654 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 318167010655 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 318167010656 hinge; other site 318167010657 active site 318167010658 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 318167010659 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 318167010660 anti sigma factor interaction site; other site 318167010661 regulatory phosphorylation site [posttranslational modification]; other site 318167010662 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 318167010663 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 318167010664 mce related protein; Region: MCE; pfam02470 318167010665 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 318167010666 Permease; Region: Permease; cl00510 318167010667 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 318167010668 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 318167010669 Walker A/P-loop; other site 318167010670 ATP binding site [chemical binding]; other site 318167010671 Q-loop/lid; other site 318167010672 ABC transporter signature motif; other site 318167010673 Walker B; other site 318167010674 D-loop; other site 318167010675 H-loop/switch region; other site 318167010676 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 318167010677 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 318167010678 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 318167010679 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 318167010680 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 318167010681 putative active site [active] 318167010682 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 318167010683 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 318167010684 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 318167010685 active site 318167010686 motif I; other site 318167010687 motif II; other site 318167010688 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 318167010689 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 318167010690 OstA-like protein; Region: OstA; cl00844 318167010691 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 318167010692 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 318167010693 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 318167010694 Walker A/P-loop; other site 318167010695 ATP binding site [chemical binding]; other site 318167010696 Q-loop/lid; other site 318167010697 ABC transporter signature motif; other site 318167010698 Walker B; other site 318167010699 D-loop; other site 318167010700 H-loop/switch region; other site 318167010701 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 318167010702 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 318167010703 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 318167010704 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 318167010705 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 318167010706 30S subunit binding site; other site 318167010707 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 318167010708 active site 318167010709 phosphorylation site [posttranslational modification] 318167010710 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 318167010711 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 318167010712 dimerization domain swap beta strand [polypeptide binding]; other site 318167010713 regulatory protein interface [polypeptide binding]; other site 318167010714 active site 318167010715 regulatory phosphorylation site [posttranslational modification]; other site 318167010716 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 318167010717 MgtE intracellular N domain; Region: MgtE_N; smart00924 318167010718 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 318167010719 Divalent cation transporter; Region: MgtE; pfam01769 318167010720 Transposase; Region: HTH_Tnp_1; cl17663 318167010721 Response regulator receiver domain; Region: Response_reg; pfam00072 318167010722 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167010723 active site 318167010724 phosphorylation site [posttranslational modification] 318167010725 intermolecular recognition site; other site 318167010726 dimerization interface [polypeptide binding]; other site 318167010727 PAS fold; Region: PAS; pfam00989 318167010728 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 318167010729 putative active site [active] 318167010730 heme pocket [chemical binding]; other site 318167010731 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167010732 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167010733 metal binding site [ion binding]; metal-binding site 318167010734 active site 318167010735 I-site; other site 318167010736 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 318167010737 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 318167010738 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 318167010739 substrate binding pocket [chemical binding]; other site 318167010740 membrane-bound complex binding site; other site 318167010741 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 318167010742 dimerization interface [polypeptide binding]; other site 318167010743 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167010744 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167010745 metal binding site [ion binding]; metal-binding site 318167010746 active site 318167010747 I-site; other site 318167010748 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 318167010749 FMN reductase; Validated; Region: fre; PRK08051 318167010750 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 318167010751 FAD binding pocket [chemical binding]; other site 318167010752 FAD binding motif [chemical binding]; other site 318167010753 phosphate binding motif [ion binding]; other site 318167010754 beta-alpha-beta structure motif; other site 318167010755 NAD binding pocket [chemical binding]; other site 318167010756 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 318167010757 trimer interface [polypeptide binding]; other site 318167010758 active site 318167010759 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 318167010760 trimer interface [polypeptide binding]; other site 318167010761 active site 318167010762 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 318167010763 trimer interface [polypeptide binding]; other site 318167010764 active site 318167010765 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 318167010766 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 318167010767 UbiA prenyltransferase family; Region: UbiA; pfam01040 318167010768 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 318167010769 Part of AAA domain; Region: AAA_19; pfam13245 318167010770 Family description; Region: UvrD_C_2; pfam13538 318167010771 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167010772 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167010773 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 318167010774 putative effector binding pocket; other site 318167010775 dimerization interface [polypeptide binding]; other site 318167010776 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 318167010777 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 318167010778 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 318167010779 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 318167010780 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 318167010781 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 318167010782 uridine phosphorylase; Provisional; Region: PRK11178 318167010783 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 318167010784 Protein of unknown function (DUF465); Region: DUF465; cl01070 318167010785 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 318167010786 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 318167010787 dimer interface [polypeptide binding]; other site 318167010788 active site 318167010789 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318167010790 catalytic residues [active] 318167010791 substrate binding site [chemical binding]; other site 318167010792 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 318167010793 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318167010794 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 318167010795 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 318167010796 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 318167010797 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 318167010798 substrate binding site [chemical binding]; other site 318167010799 dimer interface [polypeptide binding]; other site 318167010800 ATP binding site [chemical binding]; other site 318167010801 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 318167010802 active site 318167010803 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 318167010804 non-specific DNA binding site [nucleotide binding]; other site 318167010805 salt bridge; other site 318167010806 sequence-specific DNA binding site [nucleotide binding]; other site 318167010807 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 318167010808 Nuclease-related domain; Region: NERD; pfam08378 318167010809 SEC-C motif; Region: SEC-C; pfam02810 318167010810 AAA ATPase domain; Region: AAA_16; pfam13191 318167010811 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 318167010812 Integrase core domain; Region: rve; pfam00665 318167010813 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 318167010814 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 318167010815 Walker A motif; other site 318167010816 ATP binding site [chemical binding]; other site 318167010817 Walker B motif; other site 318167010818 AAA domain; Region: AAA_22; pfam13401 318167010819 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 318167010820 ATP binding site [chemical binding]; other site 318167010821 putative Mg++ binding site [ion binding]; other site 318167010822 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 318167010823 non-specific DNA binding site [nucleotide binding]; other site 318167010824 salt bridge; other site 318167010825 sequence-specific DNA binding site [nucleotide binding]; other site 318167010826 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 318167010827 S-formylglutathione hydrolase; Region: PLN02442 318167010828 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 318167010829 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 318167010830 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 318167010831 substrate binding site [chemical binding]; other site 318167010832 catalytic Zn binding site [ion binding]; other site 318167010833 NAD binding site [chemical binding]; other site 318167010834 structural Zn binding site [ion binding]; other site 318167010835 dimer interface [polypeptide binding]; other site 318167010836 hypothetical protein; Provisional; Region: PRK11019 318167010837 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 318167010838 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 318167010839 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 318167010840 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167010841 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 318167010842 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 318167010843 Walker A motif; other site 318167010844 ATP binding site [chemical binding]; other site 318167010845 Walker B motif; other site 318167010846 glutathione-dependent formaldehyde-activating enzyme; Provisional; Region: PRK05417 318167010847 glutathione-dependent formaldehyde-activating enzyme; Provisional; Region: PRK05417 318167010848 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 318167010849 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 318167010850 dimer interface [polypeptide binding]; other site 318167010851 active site 318167010852 metal binding site [ion binding]; metal-binding site 318167010853 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167010854 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167010855 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 318167010856 putative effector binding pocket; other site 318167010857 putative dimerization interface [polypeptide binding]; other site 318167010858 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 318167010859 active site 318167010860 catalytic residues [active] 318167010861 DNA binding site [nucleotide binding] 318167010862 Int/Topo IB signature motif; other site 318167010863 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 318167010864 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 318167010865 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 318167010866 active site 318167010867 catalytic residues [active] 318167010868 DNA binding site [nucleotide binding] 318167010869 Int/Topo IB signature motif; other site 318167010870 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 318167010871 DNA binding site [nucleotide binding] 318167010872 Int/Topo IB signature motif; other site 318167010873 active site 318167010874 Divergent AAA domain; Region: AAA_4; pfam04326 318167010875 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 318167010876 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 318167010877 Transposase; Region: HTH_Tnp_1; pfam01527 318167010878 putative transposase OrfB; Reviewed; Region: PHA02517 318167010879 HTH-like domain; Region: HTH_21; pfam13276 318167010880 Integrase core domain; Region: rve; pfam00665 318167010881 Integrase core domain; Region: rve_3; pfam13683 318167010882 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 318167010883 Catalytic site [active] 318167010884 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 318167010885 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 318167010886 active site 318167010887 DNA binding site [nucleotide binding] 318167010888 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 318167010889 Outer membrane efflux protein; Region: OEP; pfam02321 318167010890 Outer membrane efflux protein; Region: OEP; pfam02321 318167010891 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 318167010892 lipoyl-biotinyl attachment site [posttranslational modification]; other site 318167010893 HlyD family secretion protein; Region: HlyD_3; pfam13437 318167010894 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 318167010895 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 318167010896 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 318167010897 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 318167010898 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 318167010899 DNA binding residues [nucleotide binding] 318167010900 dimer interface [polypeptide binding]; other site 318167010901 putative metal binding site [ion binding]; other site 318167010902 Heavy-metal-associated domain; Region: HMA; pfam00403 318167010903 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 318167010904 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 318167010905 metal-binding site [ion binding] 318167010906 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 318167010907 Soluble P-type ATPase [General function prediction only]; Region: COG4087 318167010908 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 318167010909 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 318167010910 active site 318167010911 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 318167010912 lipoprotein signal peptidase; Provisional; Region: PRK14787 318167010913 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 318167010914 multiple promoter invertase; Provisional; Region: mpi; PRK13413 318167010915 catalytic residues [active] 318167010916 catalytic nucleophile [active] 318167010917 Presynaptic Site I dimer interface [polypeptide binding]; other site 318167010918 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 318167010919 Synaptic Flat tetramer interface [polypeptide binding]; other site 318167010920 Synaptic Site I dimer interface [polypeptide binding]; other site 318167010921 DNA binding site [nucleotide binding] 318167010922 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 318167010923 DNA-binding interface [nucleotide binding]; DNA binding site 318167010924 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 318167010925 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 318167010926 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 318167010927 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 318167010928 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 318167010929 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 318167010930 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 318167010931 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 318167010932 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 318167010933 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 318167010934 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 318167010935 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 318167010936 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 318167010937 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 318167010938 catalytic residues [active] 318167010939 catalytic nucleophile [active] 318167010940 Presynaptic Site I dimer interface [polypeptide binding]; other site 318167010941 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 318167010942 Synaptic Flat tetramer interface [polypeptide binding]; other site 318167010943 Synaptic Site I dimer interface [polypeptide binding]; other site 318167010944 DNA binding site [nucleotide binding] 318167010945 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 318167010946 DNA-binding interface [nucleotide binding]; DNA binding site 318167010947 Double zinc ribbon; Region: DZR; pfam12773 318167010948 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 318167010949 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 318167010950 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 318167010951 catalytic residues [active] 318167010952 catalytic nucleophile [active] 318167010953 Presynaptic Site I dimer interface [polypeptide binding]; other site 318167010954 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 318167010955 Synaptic Flat tetramer interface [polypeptide binding]; other site 318167010956 Synaptic Site I dimer interface [polypeptide binding]; other site 318167010957 DNA binding site [nucleotide binding] 318167010958 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 318167010959 DNA-binding interface [nucleotide binding]; DNA binding site 318167010960 putative metal dependent hydrolase; Provisional; Region: PRK11598 318167010961 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 318167010962 Sulfatase; Region: Sulfatase; pfam00884 318167010963 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 318167010964 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 318167010965 active site 318167010966 catalytic residues [active] 318167010967 DNA binding site [nucleotide binding] 318167010968 Int/Topo IB signature motif; other site 318167010969 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 318167010970 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 318167010971 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 318167010972 active site 318167010973 catalytic residues [active] 318167010974 DNA binding site [nucleotide binding] 318167010975 Int/Topo IB signature motif; other site 318167010976 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 318167010977 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 318167010978 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 318167010979 putative active site [active] 318167010980 putative NTP binding site [chemical binding]; other site 318167010981 putative nucleic acid binding site [nucleotide binding]; other site 318167010982 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 318167010983 putative mercuric reductase; Provisional; Region: PRK13748 318167010984 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 318167010985 metal-binding site [ion binding] 318167010986 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167010987 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 318167010988 putative mercury transport protein MerC; Provisional; Region: PRK13755 318167010989 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 318167010990 metal-binding site [ion binding] 318167010991 MerT mercuric transport protein; Region: MerT; cl03578 318167010992 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 318167010993 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 318167010994 DNA binding residues [nucleotide binding] 318167010995 dimer interface [polypeptide binding]; other site 318167010996 mercury binding site [ion binding]; other site 318167010997 Putative phage integrase; Region: Phage_Integr_2; pfam13009 318167010998 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 318167010999 DNA binding site [nucleotide binding] 318167011000 active site 318167011001 Int/Topo IB signature motif; other site 318167011002 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 318167011003 DNA binding site [nucleotide binding] 318167011004 active site 318167011005 Int/Topo IB signature motif; other site 318167011006 catalytic residues [active] 318167011007 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 318167011008 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 318167011009 Protein kinase domain; Region: Pkinase; pfam00069 318167011010 Catalytic domain of Protein Kinases; Region: PKc; cd00180 318167011011 active site 318167011012 ATP binding site [chemical binding]; other site 318167011013 substrate binding site [chemical binding]; other site 318167011014 activation loop (A-loop); other site 318167011015 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 318167011016 active site 318167011017 Cache domain; Region: Cache_1; pfam02743 318167011018 PAS fold; Region: PAS_4; pfam08448 318167011019 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 318167011020 putative active site [active] 318167011021 heme pocket [chemical binding]; other site 318167011022 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 318167011023 PAS fold; Region: PAS_3; pfam08447 318167011024 putative active site [active] 318167011025 heme pocket [chemical binding]; other site 318167011026 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 318167011027 dimer interface [polypeptide binding]; other site 318167011028 phosphorylation site [posttranslational modification] 318167011029 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 318167011030 ATP binding site [chemical binding]; other site 318167011031 Mg2+ binding site [ion binding]; other site 318167011032 G-X-G motif; other site 318167011033 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167011034 Response regulator receiver domain; Region: Response_reg; pfam00072 318167011035 active site 318167011036 phosphorylation site [posttranslational modification] 318167011037 intermolecular recognition site; other site 318167011038 dimerization interface [polypeptide binding]; other site 318167011039 Response regulator receiver domain; Region: Response_reg; pfam00072 318167011040 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167011041 active site 318167011042 phosphorylation site [posttranslational modification] 318167011043 intermolecular recognition site; other site 318167011044 dimerization interface [polypeptide binding]; other site 318167011045 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318167011046 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167011047 Transcriptional regulators [Transcription]; Region: PurR; COG1609 318167011048 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 318167011049 DNA binding site [nucleotide binding] 318167011050 domain linker motif; other site 318167011051 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 318167011052 putative dimerization interface [polypeptide binding]; other site 318167011053 putative ligand binding site [chemical binding]; other site 318167011054 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 318167011055 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 318167011056 putative substrate translocation pore; other site 318167011057 Trehalase; Region: Trehalase; cl17346 318167011058 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 318167011059 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 318167011060 putative active site [active] 318167011061 PhoH-like protein; Region: PhoH; pfam02562 318167011062 ATP-dependent helicase HepA; Validated; Region: PRK04914 318167011063 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 318167011064 ATP binding site [chemical binding]; other site 318167011065 putative Mg++ binding site [ion binding]; other site 318167011066 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 318167011067 nucleotide binding region [chemical binding]; other site 318167011068 ATP-binding site [chemical binding]; other site 318167011069 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 318167011070 enoyl-CoA hydratase; Provisional; Region: PRK07509 318167011071 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 318167011072 substrate binding site [chemical binding]; other site 318167011073 oxyanion hole (OAH) forming residues; other site 318167011074 trimer interface [polypeptide binding]; other site 318167011075 Response regulator receiver domain; Region: Response_reg; pfam00072 318167011076 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167011077 active site 318167011078 phosphorylation site [posttranslational modification] 318167011079 intermolecular recognition site; other site 318167011080 dimerization interface [polypeptide binding]; other site 318167011081 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 318167011082 PAS domain; Region: PAS_9; pfam13426 318167011083 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167011084 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167011085 metal binding site [ion binding]; metal-binding site 318167011086 active site 318167011087 I-site; other site 318167011088 RNase E inhibitor protein; Provisional; Region: PRK11191 318167011089 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 318167011090 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 318167011091 putative acyl-acceptor binding pocket; other site 318167011092 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 318167011093 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 318167011094 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 318167011095 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 318167011096 putative ligand binding site [chemical binding]; other site 318167011097 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 318167011098 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318167011099 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 318167011100 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 318167011101 active site 2 [active] 318167011102 active site 1 [active] 318167011103 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 318167011104 S-adenosylmethionine binding site [chemical binding]; other site 318167011105 TraB family; Region: TraB; pfam01963 318167011106 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 318167011107 FOG: CBS domain [General function prediction only]; Region: COG0517 318167011108 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 318167011109 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167011110 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167011111 metal binding site [ion binding]; metal-binding site 318167011112 active site 318167011113 I-site; other site 318167011114 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 318167011115 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 318167011116 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 318167011117 active site 318167011118 phosphorylation site [posttranslational modification] 318167011119 intermolecular recognition site; other site 318167011120 dimerization interface [polypeptide binding]; other site 318167011121 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 318167011122 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167011123 active site 318167011124 phosphorylation site [posttranslational modification] 318167011125 intermolecular recognition site; other site 318167011126 dimerization interface [polypeptide binding]; other site 318167011127 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 318167011128 IHF dimer interface [polypeptide binding]; other site 318167011129 IHF - DNA interface [nucleotide binding]; other site 318167011130 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 318167011131 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 318167011132 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167011133 HlyD family secretion protein; Region: HlyD_3; pfam13437 318167011134 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 318167011135 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 318167011136 Walker A/P-loop; other site 318167011137 ATP binding site [chemical binding]; other site 318167011138 Q-loop/lid; other site 318167011139 ABC transporter signature motif; other site 318167011140 Walker B; other site 318167011141 D-loop; other site 318167011142 H-loop/switch region; other site 318167011143 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 318167011144 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 318167011145 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 318167011146 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 318167011147 amino acid carrier protein; Region: agcS; TIGR00835 318167011148 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 318167011149 putative hydrophobic ligand binding site [chemical binding]; other site 318167011150 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 318167011151 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 318167011152 Cytochrome c [Energy production and conversion]; Region: COG3258 318167011153 Cytochrome c; Region: Cytochrom_C; pfam00034 318167011154 Cytochrome c; Region: Cytochrom_C; cl11414 318167011155 Cytochrome c; Region: Cytochrom_C; cl11414 318167011156 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 318167011157 FAD binding site [chemical binding]; other site 318167011158 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 318167011159 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 318167011160 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 318167011161 putative catalytic residues [active] 318167011162 putative nucleotide binding site [chemical binding]; other site 318167011163 putative aspartate binding site [chemical binding]; other site 318167011164 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 318167011165 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 318167011166 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 318167011167 homodimer interface [polypeptide binding]; other site 318167011168 substrate-cofactor binding pocket; other site 318167011169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167011170 catalytic residue [active] 318167011171 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 318167011172 dimerization interface [polypeptide binding]; other site 318167011173 DNA binding site [nucleotide binding] 318167011174 corepressor binding sites; other site 318167011175 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 318167011176 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 318167011177 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 318167011178 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 318167011179 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 318167011180 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 318167011181 probable active site [active] 318167011182 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 318167011183 Domain of unknown function (DUF386); Region: DUF386; cl01047 318167011184 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 318167011185 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 318167011186 DHHA2 domain; Region: DHHA2; pfam02833 318167011187 Integrase core domain; Region: rve; pfam00665 318167011188 Integrase core domain; Region: rve_3; pfam13683 318167011189 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 318167011190 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 318167011191 DctM-like transporters; Region: DctM; pfam06808 318167011192 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 318167011193 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 318167011194 membrane-bound complex binding site; other site 318167011195 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 318167011196 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 318167011197 putative active site [active] 318167011198 catalytic site [active] 318167011199 putative metal binding site [ion binding]; other site 318167011200 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 318167011201 catalytic residues [active] 318167011202 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 318167011203 Transglycosylase; Region: Transgly; cl17702 318167011204 B12 binding domain; Region: B12-binding; pfam02310 318167011205 B12 binding site [chemical binding]; other site 318167011206 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 318167011207 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 318167011208 catalytic motif [active] 318167011209 Zn binding site [ion binding]; other site 318167011210 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 318167011211 Putative phosphatase (DUF442); Region: DUF442; cl17385 318167011212 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 318167011213 methionine synthase; Provisional; Region: PRK01207 318167011214 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 318167011215 substrate binding site [chemical binding]; other site 318167011216 THF binding site; other site 318167011217 zinc-binding site [ion binding]; other site 318167011218 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167011219 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167011220 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 318167011221 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 318167011222 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 318167011223 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 318167011224 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 318167011225 Penicillinase repressor; Region: Pencillinase_R; pfam03965 318167011226 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 318167011227 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 318167011228 HlyD family secretion protein; Region: HlyD_3; pfam13437 318167011229 Protein of unknown function (DUF3012); Region: DUF3012; pfam11216 318167011230 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 318167011231 hypothetical protein; Provisional; Region: PRK09256 318167011232 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 318167011233 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 318167011234 Dehydroquinase class II; Region: DHquinase_II; pfam01220 318167011235 active site 318167011236 trimer interface [polypeptide binding]; other site 318167011237 dimer interface [polypeptide binding]; other site 318167011238 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 318167011239 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 318167011240 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 318167011241 putative RNA binding site [nucleotide binding]; other site 318167011242 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 318167011243 S-adenosylmethionine binding site [chemical binding]; other site 318167011244 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 318167011245 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 318167011246 putative active site [active] 318167011247 putative metal binding site [ion binding]; other site 318167011248 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 318167011249 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 318167011250 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 318167011251 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 318167011252 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 318167011253 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318167011254 classical (c) SDRs; Region: SDR_c; cd05233 318167011255 NAD(P) binding site [chemical binding]; other site 318167011256 active site 318167011257 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 318167011258 Predicted transcriptional regulators [Transcription]; Region: COG1733 318167011259 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 318167011260 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 318167011261 Beta-Casp domain; Region: Beta-Casp; smart01027 318167011262 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 318167011263 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 318167011264 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 318167011265 trimer interface [polypeptide binding]; other site 318167011266 eyelet of channel; other site 318167011267 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 318167011268 substrate binding site [chemical binding]; other site 318167011269 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 318167011270 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 318167011271 metal binding site [ion binding]; metal-binding site 318167011272 putative dimer interface [polypeptide binding]; other site 318167011273 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 318167011274 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 318167011275 GAF domain; Region: GAF; pfam01590 318167011276 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167011277 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167011278 metal binding site [ion binding]; metal-binding site 318167011279 active site 318167011280 I-site; other site 318167011281 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 318167011282 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 318167011283 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 318167011284 FAD binding pocket [chemical binding]; other site 318167011285 FAD binding motif [chemical binding]; other site 318167011286 phosphate binding motif [ion binding]; other site 318167011287 beta-alpha-beta structure motif; other site 318167011288 NAD binding pocket [chemical binding]; other site 318167011289 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 318167011290 catalytic loop [active] 318167011291 iron binding site [ion binding]; other site 318167011292 hybrid cluster protein; Provisional; Region: PRK05290 318167011293 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 318167011294 ACS interaction site; other site 318167011295 CODH interaction site; other site 318167011296 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 318167011297 ACS interaction site; other site 318167011298 CODH interaction site; other site 318167011299 metal cluster binding site [ion binding]; other site 318167011300 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 318167011301 Protein of unknown function (DUF3157); Region: DUF3157; pfam11355 318167011302 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 318167011303 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 318167011304 active site 318167011305 Zn binding site [ion binding]; other site 318167011306 putative transposase OrfB; Reviewed; Region: PHA02517 318167011307 HTH-like domain; Region: HTH_21; pfam13276 318167011308 Integrase core domain; Region: rve; pfam00665 318167011309 Integrase core domain; Region: rve_3; pfam13683 318167011310 Transposase; Region: HTH_Tnp_1; pfam01527 318167011311 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 318167011312 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 318167011313 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 318167011314 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 318167011315 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 318167011316 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 318167011317 putative catalytic residue [active] 318167011318 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 318167011319 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 318167011320 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 318167011321 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 318167011322 Predicted permeases [General function prediction only]; Region: COG0730 318167011323 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 318167011324 Phosphotransferase enzyme family; Region: APH; pfam01636 318167011325 Ecdysteroid kinase; Region: EcKinase; cl17738 318167011326 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167011327 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167011328 metal binding site [ion binding]; metal-binding site 318167011329 active site 318167011330 I-site; other site 318167011331 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 318167011332 ACT domain; Region: ACT_6; pfam13740 318167011333 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 318167011334 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 318167011335 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 318167011336 DNA binding site [nucleotide binding] 318167011337 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 318167011338 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 318167011339 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 318167011340 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 318167011341 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 318167011342 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 318167011343 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 318167011344 active site 318167011345 catalytic residues [active] 318167011346 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 318167011347 PA/protease or protease-like domain interface [polypeptide binding]; other site 318167011348 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 318167011349 catalytic residues [active] 318167011350 Protein of unknown function (DUF2999); Region: DUF2999; pfam11212 318167011351 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 318167011352 PGAP1-like protein; Region: PGAP1; pfam07819 318167011353 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 318167011354 MarR family; Region: MarR; pfam01047 318167011355 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 318167011356 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 318167011357 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 318167011358 DNA-binding site [nucleotide binding]; DNA binding site 318167011359 RNA-binding motif; other site 318167011360 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 318167011361 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 318167011362 Helix-turn-helix domain; Region: HTH_18; pfam12833 318167011363 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318167011364 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 318167011365 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 318167011366 short chain dehydrogenase; Provisional; Region: PRK08267 318167011367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318167011368 NAD(P) binding site [chemical binding]; other site 318167011369 active site 318167011370 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 318167011371 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 318167011372 substrate binding pocket [chemical binding]; other site 318167011373 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 318167011374 S-adenosylmethionine binding site [chemical binding]; other site 318167011375 hypothetical protein; Provisional; Region: PRK05208 318167011376 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 318167011377 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 318167011378 non-specific DNA binding site [nucleotide binding]; other site 318167011379 salt bridge; other site 318167011380 sequence-specific DNA binding site [nucleotide binding]; other site 318167011381 Nuclease-related domain; Region: NERD; pfam08378 318167011382 Uncharacterized conserved protein [Function unknown]; Region: COG1432 318167011383 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 318167011384 putative metal binding site [ion binding]; other site 318167011385 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 318167011386 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 318167011387 ATP binding site [chemical binding]; other site 318167011388 Mg2+ binding site [ion binding]; other site 318167011389 G-X-G motif; other site 318167011390 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 318167011391 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 318167011392 ring oligomerisation interface [polypeptide binding]; other site 318167011393 ATP/Mg binding site [chemical binding]; other site 318167011394 stacking interactions; other site 318167011395 hinge regions; other site 318167011396 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 318167011397 oligomerisation interface [polypeptide binding]; other site 318167011398 mobile loop; other site 318167011399 roof hairpin; other site 318167011400 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 318167011401 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 318167011402 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 318167011403 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 318167011404 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 318167011405 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 318167011406 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 318167011407 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 318167011408 DsbD alpha interface [polypeptide binding]; other site 318167011409 catalytic residues [active] 318167011410 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 318167011411 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 318167011412 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 318167011413 TrkA-N domain; Region: TrkA_N; pfam02254 318167011414 galactokinase; Provisional; Region: PRK05101 318167011415 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 318167011416 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 318167011417 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 318167011418 active site 318167011419 catalytic residues [active] 318167011420 Putative integral membrane protein (DUF2391); Region: DUF2391; cl01935 318167011421 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 318167011422 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 318167011423 NAD(P) binding site [chemical binding]; other site 318167011424 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 318167011425 substrate binding pocket [chemical binding]; other site 318167011426 membrane-bound complex binding site; other site 318167011427 hinge residues; other site 318167011428 putative transporter; Provisional; Region: PRK11660 318167011429 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 318167011430 Sulfate transporter family; Region: Sulfate_transp; pfam00916 318167011431 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 318167011432 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318167011433 HAMP domain; Region: HAMP; pfam00672 318167011434 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 318167011435 dimer interface [polypeptide binding]; other site 318167011436 phosphorylation site [posttranslational modification] 318167011437 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318167011438 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167011439 active site 318167011440 phosphorylation site [posttranslational modification] 318167011441 intermolecular recognition site; other site 318167011442 dimerization interface [polypeptide binding]; other site 318167011443 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 318167011444 DNA binding site [nucleotide binding] 318167011445 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318167011446 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 318167011447 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 318167011448 HlyD family secretion protein; Region: HlyD_3; pfam13437 318167011449 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 318167011450 haloalkane dehalogenase; Provisional; Region: PRK00870 318167011451 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 318167011452 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 318167011453 4Fe-4S binding domain; Region: Fer4; pfam00037 318167011454 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 318167011455 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 318167011456 molybdopterin cofactor binding site; other site 318167011457 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 318167011458 putative molybdopterin cofactor binding site; other site 318167011459 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 318167011460 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 318167011461 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 318167011462 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 318167011463 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318167011464 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167011465 active site 318167011466 phosphorylation site [posttranslational modification] 318167011467 intermolecular recognition site; other site 318167011468 dimerization interface [polypeptide binding]; other site 318167011469 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 318167011470 Walker A motif; other site 318167011471 ATP binding site [chemical binding]; other site 318167011472 Walker B motif; other site 318167011473 arginine finger; other site 318167011474 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318167011475 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318167011476 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 318167011477 substrate binding pocket [chemical binding]; other site 318167011478 membrane-bound complex binding site; other site 318167011479 hinge residues; other site 318167011480 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 318167011481 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 318167011482 dimer interface [polypeptide binding]; other site 318167011483 phosphorylation site [posttranslational modification] 318167011484 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 318167011485 ATP binding site [chemical binding]; other site 318167011486 Mg2+ binding site [ion binding]; other site 318167011487 G-X-G motif; other site 318167011488 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 318167011489 heme-binding residues [chemical binding]; other site 318167011490 L-aspartate oxidase; Provisional; Region: PRK06175 318167011491 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 318167011492 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318167011493 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 318167011494 outer membrane porin, OprD family; Region: OprD; pfam03573 318167011495 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 318167011496 heme-binding residues [chemical binding]; other site 318167011497 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 318167011498 Transcriptional regulators [Transcription]; Region: FadR; COG2186 318167011499 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318167011500 DNA-binding site [nucleotide binding]; DNA binding site 318167011501 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 318167011502 Tannase and feruloyl esterase; Region: Tannase; pfam07519 318167011503 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 318167011504 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 318167011505 GAF domain; Region: GAF; pfam01590 318167011506 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 318167011507 Walker A motif; other site 318167011508 ATP binding site [chemical binding]; other site 318167011509 Walker B motif; other site 318167011510 arginine finger; other site 318167011511 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 318167011512 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 318167011513 heme-binding site [chemical binding]; other site 318167011514 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 318167011515 FAD binding pocket [chemical binding]; other site 318167011516 FAD binding motif [chemical binding]; other site 318167011517 phosphate binding motif [ion binding]; other site 318167011518 beta-alpha-beta structure motif; other site 318167011519 NAD binding pocket [chemical binding]; other site 318167011520 Heme binding pocket [chemical binding]; other site 318167011521 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 318167011522 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 318167011523 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 318167011524 mce related protein; Region: MCE; pfam02470 318167011525 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 318167011526 Permease; Region: Permease; pfam02405 318167011527 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 318167011528 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 318167011529 Walker A/P-loop; other site 318167011530 ATP binding site [chemical binding]; other site 318167011531 Q-loop/lid; other site 318167011532 ABC transporter signature motif; other site 318167011533 Walker B; other site 318167011534 D-loop; other site 318167011535 H-loop/switch region; other site 318167011536 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 318167011537 anti sigma factor interaction site; other site 318167011538 regulatory phosphorylation site [posttranslational modification]; other site 318167011539 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 318167011540 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 318167011541 ATP binding site [chemical binding]; other site 318167011542 Mg2+ binding site [ion binding]; other site 318167011543 G-X-G motif; other site 318167011544 VacJ like lipoprotein; Region: VacJ; cl01073 318167011545 putative hydrolase; Validated; Region: PRK09248 318167011546 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 318167011547 active site 318167011548 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 318167011549 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 318167011550 dimer interface [polypeptide binding]; other site 318167011551 ssDNA binding site [nucleotide binding]; other site 318167011552 tetramer (dimer of dimers) interface [polypeptide binding]; other site 318167011553 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 318167011554 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318167011555 putative substrate translocation pore; other site 318167011556 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 318167011557 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 318167011558 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 318167011559 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 318167011560 M28 Zn-Peptidases; Region: M28_like_2; cd05662 318167011561 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 318167011562 metal binding site [ion binding]; metal-binding site 318167011563 DEAD-like helicases superfamily; Region: DEXDc; smart00487 318167011564 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 318167011565 ATP binding site [chemical binding]; other site 318167011566 Mg++ binding site [ion binding]; other site 318167011567 motif III; other site 318167011568 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 318167011569 nucleotide binding region [chemical binding]; other site 318167011570 ATP-binding site [chemical binding]; other site 318167011571 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 318167011572 putative RNA binding site [nucleotide binding]; other site 318167011573 Predicted permeases [General function prediction only]; Region: RarD; COG2962 318167011574 EamA-like transporter family; Region: EamA; pfam00892 318167011575 EamA-like transporter family; Region: EamA; cl17759 318167011576 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 318167011577 ATP binding site [chemical binding]; other site 318167011578 active site 318167011579 substrate binding site [chemical binding]; other site 318167011580 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 318167011581 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 318167011582 N-terminal plug; other site 318167011583 ligand-binding site [chemical binding]; other site 318167011584 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 318167011585 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 318167011586 generic binding surface II; other site 318167011587 generic binding surface I; other site 318167011588 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 318167011589 putative catalytic site [active] 318167011590 putative metal binding site [ion binding]; other site 318167011591 putative phosphate binding site [ion binding]; other site 318167011592 HAMP domain; Region: HAMP; pfam00672 318167011593 dimerization interface [polypeptide binding]; other site 318167011594 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167011595 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167011596 dimer interface [polypeptide binding]; other site 318167011597 putative CheW interface [polypeptide binding]; other site 318167011598 peptidase PmbA; Provisional; Region: PRK11040 318167011599 hypothetical protein; Provisional; Region: PRK05255 318167011600 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167011601 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167011602 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 318167011603 dimerization interface [polypeptide binding]; other site 318167011604 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 318167011605 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 318167011606 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 318167011607 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 318167011608 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 318167011609 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 318167011610 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 318167011611 HlyD family secretion protein; Region: HlyD_3; pfam13437 318167011612 Outer membrane efflux protein; Region: OEP; pfam02321 318167011613 Outer membrane efflux protein; Region: OEP; pfam02321 318167011614 protease TldD; Provisional; Region: tldD; PRK10735 318167011615 nitrilase; Region: PLN02798 318167011616 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 318167011617 putative active site [active] 318167011618 catalytic triad [active] 318167011619 dimer interface [polypeptide binding]; other site 318167011620 TIGR02099 family protein; Region: TIGR02099 318167011621 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 318167011622 ribonuclease G; Provisional; Region: PRK11712 318167011623 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 318167011624 homodimer interface [polypeptide binding]; other site 318167011625 oligonucleotide binding site [chemical binding]; other site 318167011626 Maf-like protein; Region: Maf; pfam02545 318167011627 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 318167011628 active site 318167011629 dimer interface [polypeptide binding]; other site 318167011630 rod shape-determining protein MreD; Region: MreD; cl01087 318167011631 rod shape-determining protein MreC; Provisional; Region: PRK13922 318167011632 rod shape-determining protein MreC; Region: MreC; pfam04085 318167011633 rod shape-determining protein MreB; Provisional; Region: PRK13927 318167011634 MreB and similar proteins; Region: MreB_like; cd10225 318167011635 nucleotide binding site [chemical binding]; other site 318167011636 Mg binding site [ion binding]; other site 318167011637 putative protofilament interaction site [polypeptide binding]; other site 318167011638 RodZ interaction site [polypeptide binding]; other site 318167011639 VcfQ bacterial pilus biogenesis protein, lectin domain; Region: lectin_VcfQ; cd06900 318167011640 putative metal binding site [ion binding]; other site 318167011641 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 318167011642 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 318167011643 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 318167011644 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 318167011645 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 318167011646 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 318167011647 Walker A motif; other site 318167011648 ATP binding site [chemical binding]; other site 318167011649 Walker B motif; other site 318167011650 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 318167011651 binding surface 318167011652 Tetratricopeptide repeat; Region: TPR_16; pfam13432 318167011653 TPR motif; other site 318167011654 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 318167011655 binding surface 318167011656 TPR motif; other site 318167011657 Tetratricopeptide repeat; Region: TPR_16; pfam13432 318167011658 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 318167011659 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 318167011660 Walker A motif; other site 318167011661 ATP binding site [chemical binding]; other site 318167011662 Walker B motif; other site 318167011663 arginine finger; other site 318167011664 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 318167011665 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 318167011666 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 318167011667 regulatory protein CsrD; Provisional; Region: PRK11059 318167011668 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167011669 metal binding site [ion binding]; metal-binding site 318167011670 active site 318167011671 I-site; other site 318167011672 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 318167011673 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 318167011674 Malic enzyme, N-terminal domain; Region: malic; pfam00390 318167011675 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 318167011676 putative NAD(P) binding site [chemical binding]; other site 318167011677 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 318167011678 FimV N-terminal domain; Region: FimV_core; TIGR03505 318167011679 FimV N-terminal domain; Region: FimV_core; TIGR03505 318167011680 FimV N-terminal domain; Region: FimV_core; TIGR03505 318167011681 primosome assembly protein PriA; Validated; Region: PRK05580 318167011682 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 318167011683 ATP binding site [chemical binding]; other site 318167011684 putative Mg++ binding site [ion binding]; other site 318167011685 helicase superfamily c-terminal domain; Region: HELICc; smart00490 318167011686 nucleotide binding region [chemical binding]; other site 318167011687 ATP-binding site [chemical binding]; other site 318167011688 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 318167011689 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 318167011690 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 318167011691 active site 318167011692 HIGH motif; other site 318167011693 KMSK motif region; other site 318167011694 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 318167011695 tRNA binding surface [nucleotide binding]; other site 318167011696 anticodon binding site; other site 318167011697 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 318167011698 Sporulation related domain; Region: SPOR; cl10051 318167011699 Sporulation related domain; Region: SPOR; pfam05036 318167011700 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 318167011701 active site 318167011702 HslU subunit interaction site [polypeptide binding]; other site 318167011703 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 318167011704 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 318167011705 Walker A motif; other site 318167011706 ATP binding site [chemical binding]; other site 318167011707 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 318167011708 Walker B motif; other site 318167011709 arginine finger; other site 318167011710 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 318167011711 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 318167011712 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318167011713 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318167011714 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318167011715 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 318167011716 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 318167011717 substrate binding site [chemical binding]; other site 318167011718 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 318167011719 substrate binding site [chemical binding]; other site 318167011720 ligand binding site [chemical binding]; other site 318167011721 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 318167011722 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 318167011723 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 318167011724 motif II; other site 318167011725 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 318167011726 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 318167011727 active site 318167011728 nucleophile elbow; other site 318167011729 Surface antigen; Region: Bac_surface_Ag; pfam01103 318167011730 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 318167011731 PAS fold; Region: PAS_3; pfam08447 318167011732 PAS domain S-box; Region: sensory_box; TIGR00229 318167011733 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 318167011734 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167011735 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167011736 metal binding site [ion binding]; metal-binding site 318167011737 active site 318167011738 I-site; other site 318167011739 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 318167011740 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 318167011741 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 318167011742 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167011743 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 318167011744 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 318167011745 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 318167011746 E3 interaction surface; other site 318167011747 lipoyl attachment site [posttranslational modification]; other site 318167011748 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 318167011749 E3 interaction surface; other site 318167011750 lipoyl attachment site [posttranslational modification]; other site 318167011751 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 318167011752 E3 interaction surface; other site 318167011753 lipoyl attachment site [posttranslational modification]; other site 318167011754 e3 binding domain; Region: E3_binding; pfam02817 318167011755 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 318167011756 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 318167011757 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 318167011758 dimer interface [polypeptide binding]; other site 318167011759 TPP-binding site [chemical binding]; other site 318167011760 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 318167011761 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318167011762 DNA-binding site [nucleotide binding]; DNA binding site 318167011763 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 318167011764 regulatory protein AmpE; Provisional; Region: PRK10987 318167011765 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 318167011766 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 318167011767 amidase catalytic site [active] 318167011768 Zn binding residues [ion binding]; other site 318167011769 substrate binding site [chemical binding]; other site 318167011770 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 318167011771 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 318167011772 dimerization interface [polypeptide binding]; other site 318167011773 active site 318167011774 Pilin (bacterial filament); Region: Pilin; pfam00114 318167011775 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 318167011776 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 318167011777 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 318167011778 Walker A motif; other site 318167011779 ATP binding site [chemical binding]; other site 318167011780 Walker B motif; other site 318167011781 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 318167011782 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 318167011783 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 318167011784 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 318167011785 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 318167011786 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 318167011787 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 318167011788 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 318167011789 CoA-binding site [chemical binding]; other site 318167011790 ATP-binding [chemical binding]; other site 318167011791 hypothetical protein; Provisional; Region: PRK05287 318167011792 Domain of unknown function (DUF329); Region: DUF329; pfam03884 318167011793 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 318167011794 active site 318167011795 8-oxo-dGMP binding site [chemical binding]; other site 318167011796 nudix motif; other site 318167011797 metal binding site [ion binding]; metal-binding site 318167011798 DDE superfamily endonuclease; Region: DDE_3; pfam13358 318167011799 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 318167011800 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 318167011801 Homeodomain-like domain; Region: HTH_23; pfam13384 318167011802 Winged helix-turn helix; Region: HTH_33; pfam13592 318167011803 DDE superfamily endonuclease; Region: DDE_3; pfam13358 318167011804 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 318167011805 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 318167011806 Homeodomain-like domain; Region: HTH_23; pfam13384 318167011807 Winged helix-turn helix; Region: HTH_33; pfam13592 318167011808 preprotein translocase subunit SecA; Reviewed; Region: PRK13107 318167011809 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 318167011810 SEC-C motif; Region: SEC-C; pfam02810 318167011811 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 318167011812 Peptidase family M23; Region: Peptidase_M23; pfam01551 318167011813 Protein of unknown function (DUF721); Region: DUF721; cl02324 318167011814 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 318167011815 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 318167011816 cell division protein FtsZ; Validated; Region: PRK09330 318167011817 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 318167011818 nucleotide binding site [chemical binding]; other site 318167011819 SulA interaction site; other site 318167011820 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 318167011821 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 318167011822 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 318167011823 nucleotide binding site [chemical binding]; other site 318167011824 Cell division protein FtsA; Region: FtsA; pfam14450 318167011825 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 318167011826 Cell division protein FtsQ; Region: FtsQ; pfam03799 318167011827 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 318167011828 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 318167011829 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318167011830 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318167011831 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 318167011832 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 318167011833 active site 318167011834 homodimer interface [polypeptide binding]; other site 318167011835 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 318167011836 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 318167011837 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318167011838 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318167011839 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 318167011840 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 318167011841 Mg++ binding site [ion binding]; other site 318167011842 putative catalytic motif [active] 318167011843 putative substrate binding site [chemical binding]; other site 318167011844 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 318167011845 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 318167011846 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318167011847 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318167011848 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 318167011849 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 318167011850 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318167011851 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318167011852 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 318167011853 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 318167011854 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 318167011855 Cell division protein FtsL; Region: FtsL; pfam04999 318167011856 MraW methylase family; Region: Methyltransf_5; pfam01795 318167011857 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 318167011858 cell division protein MraZ; Reviewed; Region: PRK00326 318167011859 MraZ protein; Region: MraZ; pfam02381 318167011860 MraZ protein; Region: MraZ; pfam02381 318167011861 glycerol kinase; Provisional; Region: glpK; PRK00047 318167011862 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 318167011863 N- and C-terminal domain interface [polypeptide binding]; other site 318167011864 active site 318167011865 MgATP binding site [chemical binding]; other site 318167011866 catalytic site [active] 318167011867 metal binding site [ion binding]; metal-binding site 318167011868 glycerol binding site [chemical binding]; other site 318167011869 homotetramer interface [polypeptide binding]; other site 318167011870 homodimer interface [polypeptide binding]; other site 318167011871 FBP binding site [chemical binding]; other site 318167011872 protein IIAGlc interface [polypeptide binding]; other site 318167011873 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 318167011874 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 318167011875 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 318167011876 substrate binding site [chemical binding]; other site 318167011877 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 318167011878 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 318167011879 substrate binding site [chemical binding]; other site 318167011880 ligand binding site [chemical binding]; other site 318167011881 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 318167011882 tartrate dehydrogenase; Region: TTC; TIGR02089 318167011883 2-isopropylmalate synthase; Validated; Region: PRK00915 318167011884 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 318167011885 active site 318167011886 catalytic residues [active] 318167011887 metal binding site [ion binding]; metal-binding site 318167011888 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 318167011889 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167011890 metal binding site [ion binding]; metal-binding site 318167011891 active site 318167011892 I-site; other site 318167011893 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 318167011894 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 318167011895 ATP binding site [chemical binding]; other site 318167011896 putative Mg++ binding site [ion binding]; other site 318167011897 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 318167011898 nucleotide binding region [chemical binding]; other site 318167011899 ATP-binding site [chemical binding]; other site 318167011900 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 318167011901 HRDC domain; Region: HRDC; pfam00570 318167011902 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 318167011903 CoenzymeA binding site [chemical binding]; other site 318167011904 subunit interaction site [polypeptide binding]; other site 318167011905 PHB binding site; other site 318167011906 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 318167011907 N-acetylglutamate synthase; Validated; Region: PRK05279 318167011908 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 318167011909 putative feedback inhibition sensing region; other site 318167011910 putative nucleotide binding site [chemical binding]; other site 318167011911 putative substrate binding site [chemical binding]; other site 318167011912 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318167011913 Coenzyme A binding pocket [chemical binding]; other site 318167011914 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 318167011915 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 318167011916 hypothetical protein; Reviewed; Region: PRK00024 318167011917 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 318167011918 MPN+ (JAMM) motif; other site 318167011919 Zinc-binding site [ion binding]; other site 318167011920 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 318167011921 Flavoprotein; Region: Flavoprotein; pfam02441 318167011922 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 318167011923 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 318167011924 trimer interface [polypeptide binding]; other site 318167011925 active site 318167011926 division inhibitor protein; Provisional; Region: slmA; PRK09480 318167011927 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318167011928 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 318167011929 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 318167011930 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 318167011931 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 318167011932 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 318167011933 active site 318167011934 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318167011935 active site 318167011936 ribonuclease PH; Reviewed; Region: rph; PRK00173 318167011937 Ribonuclease PH; Region: RNase_PH_bact; cd11362 318167011938 hexamer interface [polypeptide binding]; other site 318167011939 active site 318167011940 hypothetical protein; Provisional; Region: PRK11820 318167011941 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 318167011942 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 318167011943 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 318167011944 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 318167011945 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 318167011946 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 318167011947 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 318167011948 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 318167011949 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 318167011950 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 318167011951 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 318167011952 PLD-like domain; Region: PLDc_2; pfam13091 318167011953 putative homodimer interface [polypeptide binding]; other site 318167011954 putative active site [active] 318167011955 catalytic site [active] 318167011956 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 318167011957 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 318167011958 ATP binding site [chemical binding]; other site 318167011959 putative Mg++ binding site [ion binding]; other site 318167011960 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 318167011961 nucleotide binding region [chemical binding]; other site 318167011962 ATP-binding site [chemical binding]; other site 318167011963 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 318167011964 Fic family protein [Function unknown]; Region: COG3177 318167011965 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 318167011966 Fic/DOC family; Region: Fic; pfam02661 318167011967 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 318167011968 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318167011969 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 318167011970 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 318167011971 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 318167011972 Ligand binding site; other site 318167011973 DXD motif; other site 318167011974 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 318167011975 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 318167011976 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 318167011977 Lipase (class 2); Region: Lipase_2; pfam01674 318167011978 lipase chaperone; Provisional; Region: PRK01294 318167011979 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 318167011980 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 318167011981 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 318167011982 N-terminal plug; other site 318167011983 ligand-binding site [chemical binding]; other site 318167011984 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167011985 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167011986 dimer interface [polypeptide binding]; other site 318167011987 putative CheW interface [polypeptide binding]; other site 318167011988 Helix-turn-helix domain; Region: HTH_18; pfam12833 318167011989 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318167011990 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 318167011991 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 318167011992 putative substrate translocation pore; other site 318167011993 HPP family; Region: HPP; pfam04982 318167011994 aromatic amino acid exporter; Provisional; Region: PRK11689 318167011995 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 318167011996 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 318167011997 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 318167011998 putative metal binding site [ion binding]; other site 318167011999 Peptidase family M28; Region: Peptidase_M28; pfam04389 318167012000 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 318167012001 Interdomain contacts; other site 318167012002 Cytokine receptor motif; other site 318167012003 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 318167012004 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 318167012005 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318167012006 catalytic residue [active] 318167012007 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 318167012008 Protein export membrane protein; Region: SecD_SecF; cl14618 318167012009 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 318167012010 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 318167012011 HlyD family secretion protein; Region: HlyD_3; pfam13437 318167012012 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 318167012013 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 318167012014 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167012015 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318167012016 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 318167012017 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 318167012018 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 318167012019 active site 318167012020 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK00910 318167012021 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 318167012022 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 318167012023 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 318167012024 salt bridge; other site 318167012025 non-specific DNA binding site [nucleotide binding]; other site 318167012026 sequence-specific DNA binding site [nucleotide binding]; other site 318167012027 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 318167012028 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 318167012029 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 318167012030 DNA binding residues [nucleotide binding] 318167012031 putative dimer interface [polypeptide binding]; other site 318167012032 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 318167012033 oligopeptidase A; Provisional; Region: PRK10911 318167012034 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 318167012035 active site 318167012036 Zn binding site [ion binding]; other site 318167012037 glutathione reductase; Validated; Region: PRK06116 318167012038 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 318167012039 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318167012040 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 318167012041 Winged helix-turn helix; Region: HTH_29; pfam13551 318167012042 Helix-turn-helix domain; Region: HTH_28; pfam13518 318167012043 Homeodomain-like domain; Region: HTH_32; pfam13565 318167012044 Integrase core domain; Region: rve; pfam00665 318167012045 Integrase core domain; Region: rve_3; cl15866 318167012046 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 318167012047 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 318167012048 transmembrane helices; other site 318167012049 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 318167012050 putative active site [active] 318167012051 putative metal binding residues [ion binding]; other site 318167012052 signature motif; other site 318167012053 putative dimer interface [polypeptide binding]; other site 318167012054 putative phosphate binding site [ion binding]; other site 318167012055 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 318167012056 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 318167012057 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 318167012058 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 318167012059 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 318167012060 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 318167012061 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167012062 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318167012063 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 318167012064 DNA binding residues [nucleotide binding] 318167012065 dimerization interface [polypeptide binding]; other site 318167012066 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167012067 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318167012068 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 318167012069 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167012070 LysR substrate binding domain; Region: LysR_substrate; pfam03466 318167012071 dimerization interface [polypeptide binding]; other site 318167012072 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 318167012073 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 318167012074 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 318167012075 heme-binding residues [chemical binding]; other site 318167012076 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 318167012077 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 318167012078 Predicted oxidoreductase [General function prediction only]; Region: COG3573 318167012079 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 318167012080 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 318167012081 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 318167012082 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 318167012083 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 318167012084 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 318167012085 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 318167012086 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 318167012087 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 318167012088 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318167012089 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167012090 active site 318167012091 phosphorylation site [posttranslational modification] 318167012092 intermolecular recognition site; other site 318167012093 dimerization interface [polypeptide binding]; other site 318167012094 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 318167012095 DNA binding site [nucleotide binding] 318167012096 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318167012097 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 318167012098 dimer interface [polypeptide binding]; other site 318167012099 phosphorylation site [posttranslational modification] 318167012100 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 318167012101 ATP binding site [chemical binding]; other site 318167012102 Mg2+ binding site [ion binding]; other site 318167012103 G-X-G motif; other site 318167012104 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 318167012105 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 318167012106 non-specific DNA binding site [nucleotide binding]; other site 318167012107 salt bridge; other site 318167012108 sequence-specific DNA binding site [nucleotide binding]; other site 318167012109 Protein of unknown function (DUF3612); Region: DUF3612; pfam12268 318167012110 malate synthase; Provisional; Region: PRK08951 318167012111 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 318167012112 4Fe-4S binding domain; Region: Fer4_5; pfam12801 318167012113 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 318167012114 PAS domain S-box; Region: sensory_box; TIGR00229 318167012115 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 318167012116 putative active site [active] 318167012117 heme pocket [chemical binding]; other site 318167012118 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 318167012119 Walker A motif; other site 318167012120 ATP binding site [chemical binding]; other site 318167012121 Walker B motif; other site 318167012122 arginine finger; other site 318167012123 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318167012124 Paraquat-inducible protein A; Region: PqiA; pfam04403 318167012125 HAMP domain; Region: HAMP; pfam00672 318167012126 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167012127 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167012128 metal binding site [ion binding]; metal-binding site 318167012129 active site 318167012130 I-site; other site 318167012131 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 318167012132 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 318167012133 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 318167012134 apolar tunnel; other site 318167012135 heme binding site [chemical binding]; other site 318167012136 dimerization interface [polypeptide binding]; other site 318167012137 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 318167012138 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 318167012139 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318167012140 Zn2+ binding site [ion binding]; other site 318167012141 Mg2+ binding site [ion binding]; other site 318167012142 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 318167012143 chorismate binding enzyme; Region: Chorismate_bind; cl10555 318167012144 hypothetical protein; Provisional; Region: PRK11212 318167012145 HAMP domain; Region: HAMP; pfam00672 318167012146 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 318167012147 dimer interface [polypeptide binding]; other site 318167012148 phosphorylation site [posttranslational modification] 318167012149 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 318167012150 ATP binding site [chemical binding]; other site 318167012151 Mg2+ binding site [ion binding]; other site 318167012152 G-X-G motif; other site 318167012153 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318167012154 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167012155 active site 318167012156 phosphorylation site [posttranslational modification] 318167012157 intermolecular recognition site; other site 318167012158 dimerization interface [polypeptide binding]; other site 318167012159 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 318167012160 Walker A motif; other site 318167012161 ATP binding site [chemical binding]; other site 318167012162 Walker B motif; other site 318167012163 arginine finger; other site 318167012164 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318167012165 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 318167012166 PBP superfamily domain; Region: PBP_like_2; pfam12849 318167012167 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 318167012168 dimer interface [polypeptide binding]; other site 318167012169 conserved gate region; other site 318167012170 putative PBP binding loops; other site 318167012171 ABC-ATPase subunit interface; other site 318167012172 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 318167012173 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 318167012174 Walker A/P-loop; other site 318167012175 ATP binding site [chemical binding]; other site 318167012176 Q-loop/lid; other site 318167012177 ABC transporter signature motif; other site 318167012178 Walker B; other site 318167012179 D-loop; other site 318167012180 H-loop/switch region; other site 318167012181 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 318167012182 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 318167012183 GTP binding site; other site 318167012184 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional; Region: PRK14491 318167012185 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 318167012186 Walker A motif; other site 318167012187 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 318167012188 dimer interface [polypeptide binding]; other site 318167012189 putative functional site; other site 318167012190 putative MPT binding site; other site 318167012191 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 318167012192 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 318167012193 FeS/SAM binding site; other site 318167012194 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 318167012195 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 318167012196 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 318167012197 DNA binding site [nucleotide binding] 318167012198 catalytic residue [active] 318167012199 H2TH interface [polypeptide binding]; other site 318167012200 putative catalytic residues [active] 318167012201 turnover-facilitating residue; other site 318167012202 intercalation triad [nucleotide binding]; other site 318167012203 8OG recognition residue [nucleotide binding]; other site 318167012204 putative reading head residues; other site 318167012205 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 318167012206 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 318167012207 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 318167012208 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 318167012209 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 318167012210 active site 318167012211 (T/H)XGH motif; other site 318167012212 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 318167012213 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 318167012214 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 318167012215 putative active site [active] 318167012216 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 318167012217 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 318167012218 NADP binding site [chemical binding]; other site 318167012219 homopentamer interface [polypeptide binding]; other site 318167012220 substrate binding site [chemical binding]; other site 318167012221 active site 318167012222 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318167012223 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 318167012224 active site 318167012225 nucleotide binding site [chemical binding]; other site 318167012226 HIGH motif; other site 318167012227 KMSKS motif; other site 318167012228 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 318167012229 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 318167012230 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 318167012231 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 318167012232 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 318167012233 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 318167012234 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 318167012235 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 318167012236 putative active site [active] 318167012237 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 318167012238 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 318167012239 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 318167012240 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 318167012241 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167012242 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318167012243 Bacterial transcriptional repressor; Region: TetR; pfam13972 318167012244 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 318167012245 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 318167012246 substrate-cofactor binding pocket; other site 318167012247 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318167012248 catalytic residue [active] 318167012249 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 318167012250 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 318167012251 NAD(P) binding site [chemical binding]; other site 318167012252 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 318167012253 active site residue [active] 318167012254 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 318167012255 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 318167012256 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 318167012257 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 318167012258 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 318167012259 conserved cys residue [active] 318167012260 DNA polymerase I; Provisional; Region: PRK05755 318167012261 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 318167012262 active site 318167012263 metal binding site 1 [ion binding]; metal-binding site 318167012264 putative 5' ssDNA interaction site; other site 318167012265 metal binding site 3; metal-binding site 318167012266 metal binding site 2 [ion binding]; metal-binding site 318167012267 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 318167012268 putative DNA binding site [nucleotide binding]; other site 318167012269 putative metal binding site [ion binding]; other site 318167012270 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 318167012271 active site 318167012272 catalytic site [active] 318167012273 substrate binding site [chemical binding]; other site 318167012274 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 318167012275 active site 318167012276 DNA binding site [nucleotide binding] 318167012277 catalytic site [active] 318167012278 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 318167012279 G1 box; other site 318167012280 GTP/Mg2+ binding site [chemical binding]; other site 318167012281 Switch I region; other site 318167012282 G2 box; other site 318167012283 G3 box; other site 318167012284 Switch II region; other site 318167012285 G4 box; other site 318167012286 G5 box; other site 318167012287 Cytochrome c553 [Energy production and conversion]; Region: COG2863 318167012288 Cytochrome c; Region: Cytochrom_C; cl11414 318167012289 TFIIB zinc-binding; Region: TF_Zn_Ribbon; pfam08271 318167012290 Methyltransferase domain; Region: Methyltransf_23; pfam13489 318167012291 Methyltransferase domain; Region: Methyltransf_12; pfam08242 318167012292 Der GTPase activator (YihI); Region: YihI; pfam04220 318167012293 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 318167012294 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 318167012295 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 318167012296 putative acyl-acceptor binding pocket; other site 318167012297 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...; Region: Lipase; cl14883 318167012298 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318167012299 nucleophilic elbow; other site 318167012300 catalytic triad; other site 318167012301 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 318167012302 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318167012303 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 318167012304 active sites [active] 318167012305 tetramer interface [polypeptide binding]; other site 318167012306 urocanate hydratase; Provisional; Region: PRK05414 318167012307 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 318167012308 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318167012309 DNA-binding site [nucleotide binding]; DNA binding site 318167012310 UTRA domain; Region: UTRA; pfam07702 318167012311 imidazolonepropionase; Validated; Region: PRK09356 318167012312 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 318167012313 active site 318167012314 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 318167012315 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 318167012316 motif II; other site 318167012317 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 318167012318 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 318167012319 active site 318167012320 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 318167012321 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 318167012322 putative transposase OrfB; Reviewed; Region: PHA02517 318167012323 HTH-like domain; Region: HTH_21; pfam13276 318167012324 Integrase core domain; Region: rve; pfam00665 318167012325 Integrase core domain; Region: rve_3; pfam13683 318167012326 Transposase; Region: HTH_Tnp_1; pfam01527 318167012327 Protein of unknown function (DUF465); Region: DUF465; pfam04325 318167012328 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 318167012329 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 318167012330 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 318167012331 Tetratricopeptide repeat; Region: TPR_16; pfam13432 318167012332 binding surface 318167012333 TPR motif; other site 318167012334 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 318167012335 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 318167012336 motif II; other site 318167012337 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 318167012338 active site 318167012339 Predicted acetyltransferase [General function prediction only]; Region: COG2388 318167012340 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 318167012341 active site 318167012342 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 318167012343 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 318167012344 acyl-activating enzyme (AAE) consensus motif; other site 318167012345 putative AMP binding site [chemical binding]; other site 318167012346 putative active site [active] 318167012347 putative CoA binding site [chemical binding]; other site 318167012348 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 318167012349 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 318167012350 Walker A/P-loop; other site 318167012351 ATP binding site [chemical binding]; other site 318167012352 Q-loop/lid; other site 318167012353 ABC transporter signature motif; other site 318167012354 Walker B; other site 318167012355 D-loop; other site 318167012356 H-loop/switch region; other site 318167012357 Predicted transcriptional regulators [Transcription]; Region: COG1725 318167012358 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318167012359 DNA-binding site [nucleotide binding]; DNA binding site 318167012360 TAP-like protein; Region: Abhydrolase_4; pfam08386 318167012361 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 318167012362 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318167012363 Walker A/P-loop; other site 318167012364 ATP binding site [chemical binding]; other site 318167012365 Q-loop/lid; other site 318167012366 ABC transporter signature motif; other site 318167012367 Walker B; other site 318167012368 D-loop; other site 318167012369 H-loop/switch region; other site 318167012370 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 318167012371 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 318167012372 phage shock protein C; Region: phageshock_pspC; TIGR02978 318167012373 CHASE4 domain; Region: CHASE4; pfam05228 318167012374 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167012375 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167012376 metal binding site [ion binding]; metal-binding site 318167012377 active site 318167012378 I-site; other site 318167012379 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 318167012380 MPT binding site; other site 318167012381 trimer interface [polypeptide binding]; other site 318167012382 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167012383 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318167012384 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318167012385 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 318167012386 HlyD family secretion protein; Region: HlyD_3; pfam13437 318167012387 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 318167012388 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 318167012389 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 318167012390 putative substrate binding site [chemical binding]; other site 318167012391 putative ATP binding site [chemical binding]; other site 318167012392 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318167012393 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167012394 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167012395 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 318167012396 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 318167012397 putative substrate translocation pore; other site 318167012398 sucrose phosphorylase; Provisional; Region: PRK13840 318167012399 Alpha amylase catalytic domain found in sucrose phosphorylase (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase; cd11355 318167012400 active site 318167012401 homodimer interface [polypeptide binding]; other site 318167012402 catalytic site [active] 318167012403 Transcriptional regulators [Transcription]; Region: PurR; COG1609 318167012404 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 318167012405 DNA binding site [nucleotide binding] 318167012406 domain linker motif; other site 318167012407 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 318167012408 putative dimerization interface [polypeptide binding]; other site 318167012409 putative ligand binding site [chemical binding]; other site 318167012410 NlpC/P60 family; Region: NLPC_P60; pfam00877 318167012411 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318167012412 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318167012413 BON domain; Region: BON; pfam04972 318167012414 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 318167012415 BON domain; Region: BON; pfam04972 318167012416 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 318167012417 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 318167012418 Walker A motif; other site 318167012419 ATP binding site [chemical binding]; other site 318167012420 Walker B motif; other site 318167012421 arginine finger; other site 318167012422 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318167012423 hypothetical protein; Provisional; Region: PRK12361 318167012424 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 318167012425 active site 318167012426 catalytic residues [active] 318167012427 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 318167012428 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 318167012429 putative substrate translocation pore; other site 318167012430 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318167012431 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 318167012432 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 318167012433 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 318167012434 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 318167012435 arsenical-resistance protein; Region: acr3; TIGR00832 318167012436 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 318167012437 Low molecular weight phosphatase family; Region: LMWPc; cd00115 318167012438 active site 318167012439 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 318167012440 dimerization interface [polypeptide binding]; other site 318167012441 putative DNA binding site [nucleotide binding]; other site 318167012442 putative Zn2+ binding site [ion binding]; other site 318167012443 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167012444 active site 318167012445 phosphorylation site [posttranslational modification] 318167012446 intermolecular recognition site; other site 318167012447 dimerization interface [polypeptide binding]; other site 318167012448 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 318167012449 PAS fold; Region: PAS_3; pfam08447 318167012450 putative active site [active] 318167012451 heme pocket [chemical binding]; other site 318167012452 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318167012453 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318167012454 metal binding site [ion binding]; metal-binding site 318167012455 active site 318167012456 I-site; other site 318167012457 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 318167012458 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318167012459 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 318167012460 dimerization interface [polypeptide binding]; other site 318167012461 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 318167012462 dimer interface [polypeptide binding]; other site 318167012463 phosphorylation site [posttranslational modification] 318167012464 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 318167012465 ATP binding site [chemical binding]; other site 318167012466 Mg2+ binding site [ion binding]; other site 318167012467 G-X-G motif; other site 318167012468 Response regulator receiver domain; Region: Response_reg; pfam00072 318167012469 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318167012470 active site 318167012471 phosphorylation site [posttranslational modification] 318167012472 intermolecular recognition site; other site 318167012473 dimerization interface [polypeptide binding]; other site 318167012474 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 318167012475 putative binding surface; other site 318167012476 active site 318167012477 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 318167012478 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 318167012479 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 318167012480 N-terminal plug; other site 318167012481 ligand-binding site [chemical binding]; other site 318167012482 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 318167012483 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 318167012484 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 318167012485 N-terminal plug; other site 318167012486 ligand-binding site [chemical binding]; other site 318167012487 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 318167012488 putative transposase OrfB; Reviewed; Region: PHA02517 318167012489 HTH-like domain; Region: HTH_21; pfam13276 318167012490 Integrase core domain; Region: rve; pfam00665 318167012491 Integrase core domain; Region: rve_3; pfam13683 318167012492 Transposase; Region: HTH_Tnp_1; pfam01527 318167012493 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 318167012494 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 318167012495 putative active site [active] 318167012496 catalytic site [active] 318167012497 Predicted flavoproteins [General function prediction only]; Region: COG2081 318167012498 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 318167012499 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 318167012500 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 318167012501 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 318167012502 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 318167012503 SecA binding site; other site 318167012504 Preprotein binding site; other site 318167012505 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 318167012506 active site residue [active] 318167012507 phosphoglyceromutase; Provisional; Region: PRK05434 318167012508 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 318167012509 AmiB activator; Provisional; Region: PRK11637 318167012510 Peptidase family M23; Region: Peptidase_M23; pfam01551 318167012511 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 318167012512 NodB motif; other site 318167012513 putative active site [active] 318167012514 putative catalytic site [active] 318167012515 Zn binding site [ion binding]; other site 318167012516 Transcriptional regulator; Region: Rrf2; cl17282 318167012517 Rrf2 family protein; Region: rrf2_super; TIGR00738 318167012518 Flagellin N-methylase; Region: FliB; pfam03692 318167012519 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 318167012520 active site 318167012521 tetramer interface [polypeptide binding]; other site 318167012522 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 318167012523 DDE superfamily endonuclease; Region: DDE_3; pfam13358 318167012524 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 318167012525 4Fe-4S binding domain; Region: Fer4_5; pfam12801 318167012526 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 318167012527 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 318167012528 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 318167012529 substrate binding site [chemical binding]; other site 318167012530 oxyanion hole (OAH) forming residues; other site 318167012531 trimer interface [polypeptide binding]; other site 318167012532 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 318167012533 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318167012534 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318167012535 dimer interface [polypeptide binding]; other site 318167012536 putative CheW interface [polypeptide binding]; other site 318167012537 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 318167012538 This conserved region includes the FMN-binding site of the NqrC protein as well as the NosR and NirI regulatory proteins; Region: FMN_bind; smart00900 318167012539 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 318167012540 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318167012541 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 318167012542 S-adenosylmethionine binding site [chemical binding]; other site 318167012543 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 318167012544 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 318167012545 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 318167012546 putative RNA binding site [nucleotide binding]; other site 318167012547 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 318167012548 S-adenosylmethionine binding site [chemical binding]; other site 318167012549 Protein of unknown function (DUF805); Region: DUF805; pfam05656 318167012550 Uncharacterized conserved protein [Function unknown]; Region: COG4748 318167012551 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 318167012552 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 318167012553 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 318167012554 glutaminase active site [active] 318167012555 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 318167012556 dimer interface [polypeptide binding]; other site 318167012557 active site 318167012558 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 318167012559 dimer interface [polypeptide binding]; other site 318167012560 active site 318167012561 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 318167012562 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 318167012563 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 318167012564 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318167012565 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 318167012566 N-terminal plug; other site 318167012567 ligand-binding site [chemical binding]; other site 318167012568 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 318167012569 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 318167012570 Substrate binding site; other site 318167012571 Mg++ binding site; other site 318167012572 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 318167012573 active site 318167012574 substrate binding site [chemical binding]; other site 318167012575 CoA binding site [chemical binding]; other site 318167012576 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 318167012577 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 318167012578 gamma subunit interface [polypeptide binding]; other site 318167012579 epsilon subunit interface [polypeptide binding]; other site 318167012580 LBP interface [polypeptide binding]; other site 318167012581 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 318167012582 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 318167012583 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 318167012584 alpha subunit interaction interface [polypeptide binding]; other site 318167012585 Walker A motif; other site 318167012586 ATP binding site [chemical binding]; other site 318167012587 Walker B motif; other site 318167012588 inhibitor binding site; inhibition site 318167012589 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 318167012590 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 318167012591 core domain interface [polypeptide binding]; other site 318167012592 delta subunit interface [polypeptide binding]; other site 318167012593 epsilon subunit interface [polypeptide binding]; other site 318167012594 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 318167012595 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 318167012596 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 318167012597 Walker A motif; other site 318167012598 ATP binding site [chemical binding]; other site 318167012599 Walker B motif; other site 318167012600 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 318167012601 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 318167012602 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 318167012603 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 318167012604 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 318167012605 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 318167012606 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 318167012607 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 318167012608 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 318167012609 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 318167012610 ParB-like nuclease domain; Region: ParBc; pfam02195 318167012611 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 318167012612 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 318167012613 P-loop; other site 318167012614 Magnesium ion binding site [ion binding]; other site 318167012615 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 318167012616 Magnesium ion binding site [ion binding]; other site 318167012617 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 318167012618 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 318167012619 S-adenosylmethionine binding site [chemical binding]; other site 318167012620 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 318167012621 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 318167012622 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 318167012623 FMN-binding protein MioC; Provisional; Region: PRK09004 318167012624 S-formylglutathione hydrolase; Region: PLN02442 318167012625 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 318167012626 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 318167012627 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 318167012628 substrate binding site [chemical binding]; other site 318167012629 catalytic Zn binding site [ion binding]; other site 318167012630 NAD binding site [chemical binding]; other site 318167012631 structural Zn binding site [ion binding]; other site 318167012632 dimer interface [polypeptide binding]; other site 318167012633 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318167012634 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318167012635 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 318167012636 dimerization interface [polypeptide binding]; other site 318167012637 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 318167012638 active site 318167012639 catalytic site [active] 318167012640 substrate binding site [chemical binding]; other site 318167012641 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 318167012642 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 318167012643 trmE is a tRNA modification GTPase; Region: trmE; cd04164 318167012644 G1 box; other site 318167012645 GTP/Mg2+ binding site [chemical binding]; other site 318167012646 Switch I region; other site 318167012647 G2 box; other site 318167012648 Switch II region; other site 318167012649 G3 box; other site 318167012650 G4 box; other site 318167012651 G5 box; other site 318167012652 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 318167012653 membrane protein insertase; Provisional; Region: PRK01318 318167012654 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 318167012655 hypothetical protein; Validated; Region: PRK00041 318167012656 ribonuclease P; Reviewed; Region: rnpA; PRK01732 318167012657 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399