1PS1

PENTALENENE SYNTHASE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 0.273 
  • R-Value Work: 0.198 
  • R-Value Observed: 0.198 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Crystal structure of pentalenene synthase: mechanistic insights on terpenoid cyclization reactions in biology.

Lesburg, C.A.Zhai, G.Cane, D.E.Christianson, D.W.

(1997) Science 277: 1820-1824

  • DOI: 10.1126/science.277.5333.1820
  • Primary Citation of Related Structures:  
    1PS1

  • PubMed Abstract: 
  • The crystal structure of pentalenene synthase at 2.6 angstrom resolution reveals critical active site features responsible for the cyclization of farnesyl diphosphate into the tricyclic hydrocarbon pentalenene. Metal-triggered substrate ionization initiates catalysis, and the alpha-barrel active site serves as a template to channel and stabilize the conformations of reactive carbocation intermediates through a complex cyclization cascade ...

    The crystal structure of pentalenene synthase at 2.6 angstrom resolution reveals critical active site features responsible for the cyclization of farnesyl diphosphate into the tricyclic hydrocarbon pentalenene. Metal-triggered substrate ionization initiates catalysis, and the alpha-barrel active site serves as a template to channel and stabilize the conformations of reactive carbocation intermediates through a complex cyclization cascade. The core active site structure of the enzyme may be preserved among the greater family of terpenoid synthases, possibly implying divergence from a common ancestral synthase to satisfy biological requirements for increasingly diverse natural products.


    Related Citations: 
    • Crystallization and Preliminary X-Ray Diffraction Analysis of Recombinant Pentalenene Synthase
      Lesburg, C.A., Lloyd, M.D., Cane, D.E., Christianson, D.W.
      (1995) Protein Sci 4: 2436
    • Pentalenene Synthase. Purification, Molecular Cloning, Sequencing, and High-Level Expression in Escherichia Coli of a Terpenoid Cyclase from Streptomyces Uc5319
      Cane, D.E., Sohng, J.K., Lamberson, C.R., Rudnicki, S.M., Wu, Z., Lloyd, M.D., Oliver, J.S., Hubbard, B.R.
      (1994) Biochemistry 33: 5846

    Organizational Affiliation

    Roy and Diana Vagelos Laboratories, Department of Chemistry, University of Pennsylvania, Philadelphia, PA 19104-6323, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
PENTALENENE SYNTHASEA, B337Streptomyces exfoliatusMutation(s): 0 
Gene Names: penA
EC: 4.6.1.5 (PDB Primary Data), 4.2.3.7 (UniProt)
UniProt
Find proteins for Q55012 (Streptomyces exfoliatus)
Explore Q55012 
Go to UniProtKB:  Q55012
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ55012
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PBM
Query on PBM

Download Ideal Coordinates CCD File 
C [auth A]TRIMETHYL LEAD ION
C3 H9 Pb
SNBFOEGVGALPSE-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 0.273 
  • R-Value Work: 0.198 
  • R-Value Observed: 0.198 
  • Space Group: P 63
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 178.72α = 90
b = 178.72β = 90
c = 56.62γ = 120
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
SOLOMONphasing
X-PLORrefinement

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1998-03-25
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Source and taxonomy, Version format compliance