4O5S

Crystal structure of Diels-Alderase CE11


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.233 
  • R-Value Work: 0.185 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Impact of scaffold rigidity on the design and evolution of an artificial Diels-Alderase

Preiswerk, N.Beck, T.Schulz, J.D.Milovnik, P.Mayer, C.Siegel, J.B.Baker, D.Hilvert, D.

(2014) Proc.Natl.Acad.Sci.USA --: --

  • DOI: 10.1073/pnas.1401073111
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • By combining targeted mutagenesis, computational refinement, and directed evolution, a modestly active, computationally designed Diels-Alderase was converted into the most proficient biocatalyst for [4+2] cycloadditions known. The high stereoselectiv ...

    By combining targeted mutagenesis, computational refinement, and directed evolution, a modestly active, computationally designed Diels-Alderase was converted into the most proficient biocatalyst for [4+2] cycloadditions known. The high stereoselectivity and minimal product inhibition of the evolved enzyme enabled preparative scale synthesis of a single product diastereomer. X-ray crystallography of the enzyme-product complex shows that the molecular changes introduced over the course of optimization, including addition of a lid structure, gradually reshaped the pocket for more effective substrate preorganization and transition state stabilization. The good overall agreement between the experimental structure and the original design model with respect to the orientations of both the bound product and the catalytic side chains contrasts with other computationally designed enzymes. Because design accuracy appears to correlate with scaffold rigidity, improved control over backbone conformation will likely be the key to future efforts to design more efficient enzymes for diverse chemical reactions.


    Organizational Affiliation

    Laboratory of Organic Chemistry, Eidgenössische Technische Hochschule Zürich, 8093 Zurich, Switzerland;




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Diisopropyl-fluorophosphatase
A, B
337Loligo vulgarisMutation(s): 25 
EC: 3.1.8.2
Find proteins for Q7SIG4 (Loligo vulgaris)
Go to UniProtKB:  Q7SIG4
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.233 
  • R-Value Work: 0.185 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 43.040α = 84.12
b = 46.150β = 83.01
c = 76.910γ = 66.18
Software Package:
Software NamePurpose
PHASERphasing
XDSdata reduction
REFMACrefinement
SADABSdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-06-04
    Type: Initial release
  • Version 1.1: 2017-11-22
    Type: Refinement description