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Structure paper

TitlePrediction of function for the polyprenyl transferase subgroup in the isoprenoid synthase superfamily.
Journal, issue, pagesProc. Natl. Acad. Sci. USA, Vol. 110, Page E1196-E1202, Year 2013
Publish dateFeb 4, 2010 (structure data deposition date)
AuthorsWallrapp, F.H. / Pan, J.J. / Ramamoorthy, G. / Almonacid, D.E. / Hillerich, B.S. / Seidel, R. / Patskovsky, Y. / Babbitt, P.C. / Almo, S.C. / Jacobson, M.P. / Poulter, C.D.
External linksProc. Natl. Acad. Sci. USA / PubMed:23493556
MethodsX-ray diffraction
Resolution1.65 - 2.5 Å
Structure data

PDB-3lom:
CRYSTAL STRUCTURE OF GERANYLTRANSFERASE FROM Legionella pneumophila
Method: X-RAY DIFFRACTION / Resolution: 2.3 Å

PDB-3lvs:
Crystal structure of farnesyl diphosphate synthase from rhodobacter capsulatus sb1003
Method: X-RAY DIFFRACTION / Resolution: 2.15 Å

PDB-3mzv:
Crystal structure of a decaprenyl diphosphate synthase from Rhodobacter capsulatus
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

PDB-3nf2:
Crystal structure of polyprenyl synthetase from Streptomyces coelicolor A3(2)
Method: X-RAY DIFFRACTION / Resolution: 2.2 Å

PDB-3oyr:
Crystal structure of polyprenyl synthase from Caulobacter crescentus CB15 complexed with calcium and isoprenyl diphosphate
Method: X-RAY DIFFRACTION / Resolution: 2.0 Å

PDB-3p41:
Crystal structure of polyprenyl synthetase from pseudomonas fluorescens pf-5 complexed with magnesium and isoprenyl pyrophosphate
Method: X-RAY DIFFRACTION / Resolution: 1.76 Å

PDB-3p8l:
Crystal structure of polyprenyl synthase from Enterococcus faecalis V583
Method: X-RAY DIFFRACTION / Resolution: 2.0 Å

PDB-3p8r:
CRYSTAL STRUCTURE OF POLYPRENYL SYNTHASE FROM Vibrio cholerae
Method: X-RAY DIFFRACTION / Resolution: 2.5 Å

PDB-3pde:
Crystal structure of geranylgeranyl pyrophosphate synthase from Lactobacillus brevis atcc 367 complexed with isoprenyl diphosphate and magnesium
Method: X-RAY DIFFRACTION / Resolution: 1.75 Å

PDB-3pko:
Crystal structure of geranylgeranyl pyrophosphate synthase from lactobacillus brevis atcc 367 complexed with citrate
Method: X-RAY DIFFRACTION / Resolution: 1.98 Å

PDB-3q1o:
Crystal structure of geranyltransferase from helicobacter pylori complexed with magnesium and isoprenyl diphosphate
Method: X-RAY DIFFRACTION / Resolution: 2.4 Å

PDB-3q2q:
Crystal structure of geranylgeranyl pyrophosphate synthase from Corynebacterium glutamicum complexed with calcium and isoprenyl diphosphate
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

PDB-3qqv:
Crystal structure of geranylgeranyl pyrophosphate synthase from corynebacterium glutamicum complexed with isoprenyl diphosphate and magnesium
Method: X-RAY DIFFRACTION / Resolution: 2.0 Å

PDB-3rmg:
Crystal structure of geranylgeranyl pyrophosphate synthase from bacteroides thetaiotaomicron
Method: X-RAY DIFFRACTION / Resolution: 2.3 Å

PDB-3ts7:
CRYSTAL STRUCTURE OF FARNESYL DIPHOSPHATE SYNTHASE (TARGET EFI-501951) FROM Methylococcus capsulatus
Method: X-RAY DIFFRACTION / Resolution: 1.94 Å

PDB-3uca:
Crystal structure of isoprenoid synthase (target EFI-501974) from clostridium perfringens
Method: X-RAY DIFFRACTION / Resolution: 2.0 Å

PDB-4dhd:
Crystal structure of isoprenoid synthase A3MSH1 (TARGET EFI-501992) from Pyrobaculum calidifontis
Method: X-RAY DIFFRACTION / Resolution: 1.65 Å

PDB-4f62:
Crystal structure of a putative farnesyl-diphosphate synthase from Marinomonas sp. MED121 (Target EFI-501980)
Method: X-RAY DIFFRACTION / Resolution: 2.101 Å

PDB-4fp4:
Crystal structure of isoprenoid synthase a3mx09 (target efi-501993) from pyrobaculum calidifontis
Method: X-RAY DIFFRACTION / Resolution: 2.0 Å

Chemicals

ChemComp-PO4:
PHOSPHATE ION / Phosphate

ChemComp-HOH:
WATER / Water

ChemComp-GOL:
GLYCEROL / Glycerol

ChemComp-SO4:
SULFATE ION / Sulfate

ChemComp-POP:
PYROPHOSPHATE 2- / Pyrophosphate

ChemComp-DMA:
DIMETHYLALLYL DIPHOSPHATE / Dimethylallyl pyrophosphate

ChemComp-CA:
Unknown entry

ChemComp-MG:
Unknown entry

ChemComp-CL:
Unknown entry / Chloride

ChemComp-CIT:
CITRIC ACID / Citric acid


ChemComp, No image

ChemComp-UNL:
Unknown ligand

ChemComp-ACT:
ACETATE ION / Acetate

ChemComp-GER:
GERAN-8-YL GERAN

ChemComp-UNX:
Unknown entry

Source
  • legionella pneumophila subsp. pneumophila (bacteria)
  • rhodobacter capsulatus (bacteria)
  • streptomyces coelicolor (bacteria)
  • caulobacter crescentus (bacteria)
  • pseudomonas fluorescens (bacteria)
  • enterococcus faecalis (bacteria)
  • vibrio cholerae (bacteria)
  • lactobacillus brevis (bacteria)
  • helicobacter pylori (bacteria)
  • corynebacterium glutamicum (bacteria)
  • bacteroides thetaiotaomicron (bacteria)
  • methylococcus capsulatus (bacteria)
  • clostridium perfringens (bacteria)
  • pyrobaculum calidifontis (archaea)
  • marinomonas sp. med121 (bacteria)
KeywordsTRANSFERASE / GERANYLTRANSFERASE / STRUCTURAL GENOMICS / PSI / PROTEIN STRUCTURE INITIATIVE / NYSGRC / NEW YORK STRUCTURAL GENOMIX RESEARCH CONSORTIUM / NYSGXRC / Isoprene biosynthesis / New York SGX Research Center for Structural Genomics / ISOPRENYL DIPHOSPHATE SYNTHASE / PSI-2 / ISOPRENYL SYNTHASE / TERPENOID BIOSYNTHESIS / GERANYLGERANYL PYROPHOSPHATE SYNTHASE / ENZYME FUNCTION INITIATIVE / EFI / ISOPRENOID SYNTHESIS / FARNESYL DIPHOSPHATE SYNTHASE / ISOPRENOID DIPHOSPHATE SYNTHASE

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