5CPO

Crystal structure of XenA from Pseudomonas putida in complex with an NADH mimic (mBu)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.187 
  • R-Value Work: 0.157 
  • R-Value Observed: 0.158 

Starting Model: experimental
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This is version 1.2 of the entry. See complete history


Literature

Better than Nature: Nicotinamide Biomimetics That Outperform Natural Coenzymes.

Knaus, T.Paul, C.E.Levy, C.W.de Vries, S.Mutti, F.G.Hollmann, F.Scrutton, N.S.

(2016) J Am Chem Soc 138: 1033-1039

  • DOI: https://doi.org/10.1021/jacs.5b12252
  • Primary Citation of Related Structures:  
    5CPL, 5CPM, 5CPN, 5CPO

  • PubMed Abstract: 

    The search for affordable, green biocatalytic processes is a challenge for chemicals manufacture. Redox biotransformations are potentially attractive, but they rely on unstable and expensive nicotinamide coenzymes that have prevented their widespread exploitation. Stoichiometric use of natural coenzymes is not viable economically, and the instability of these molecules hinders catalytic processes that employ coenzyme recycling. Here, we investigate the efficiency of man-made synthetic biomimetics of the natural coenzymes NAD(P)H in redox biocatalysis. Extensive studies with a range of oxidoreductases belonging to the "ene" reductase family show that these biomimetics are excellent analogues of the natural coenzymes, revealed also in crystal structures of the ene reductase XenA with selected biomimetics. In selected cases, these biomimetics outperform the natural coenzymes. "Better-than-Nature" biomimetics should find widespread application in fine and specialty chemicals production by harnessing the power of high stereo-, regio-, and chemoselective redox biocatalysts and enabling reactions under mild conditions at low cost.


  • Organizational Affiliation

    BBSRC/EPSRC Centre for Synthetic Biology of Fine and Speciality Chemicals, Faculty of Life Sciences, Manchester Institute of Biotechnology , 131 Princess Street, Manchester M1 7DN, United Kingdom.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Xenobiotic reductase
A, B
371Pseudomonas putidaMutation(s): 0 
Gene Names: xenA
UniProt
Find proteins for Q9R9V9 (Pseudomonas putida)
Explore Q9R9V9 
Go to UniProtKB:  Q9R9V9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9R9V9
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.187 
  • R-Value Work: 0.157 
  • R-Value Observed: 0.158 
  • Space Group: P 2 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 57.11α = 90
b = 84.14β = 90
c = 156.93γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
xia2data reduction
xia2data scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

  • Released Date: 2016-01-20 
  • Deposition Author(s): Levy, C.W.

Revision History  (Full details and data files)

  • Version 1.0: 2016-01-20
    Type: Initial release
  • Version 1.1: 2016-02-03
    Changes: Database references
  • Version 1.2: 2024-01-10
    Changes: Data collection, Database references, Derived calculations, Refinement description