5CPN

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


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.219 
  • R-Value Work: 0.182 

wwPDB Validation 3D Report Full Report


This is version 1.1 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: 10.1021/jacs.5b12252
  • Primary Citation of Related Structures:  

  • 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 ...

    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: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Xenobiotic reductase
A, B
371Pseudomonas putidaMutation(s): 0 
Gene Names: xenA
Find proteins for Q9R9V9 (Pseudomonas putida)
Go to UniProtKB:  Q9R9V9
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
531
Query on 531

Download SDF File 
Download CCD File 
A, B
1-[(3S)-1-benzylpiperidin-3-yl]ethanone
C14 H19 N O
PSOOKVRLQJHUPX-AWEZNQCLSA-N
 Ligand Interaction
FNR
Query on FNR

Download SDF File 
Download CCD File 
A, B
1-DEOXY-1-(7,8-DIMETHYL-2,4-DIOXO-3,4-DIHYDRO-2H-BENZO[G]PTERIDIN-1-ID-10(5H)-YL)-5-O-PHOSPHONATO-D-RIBITOL
TWO ELECTRON REDUCED FLAVIN MONONUCLEOTIDE
C17 H23 N4 O9 P
YTNIXZGTHTVJBW-SCRDCRAPSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.219 
  • R-Value Work: 0.182 
  • Space Group: P 21 21 2
Unit Cell:
Length (Å)Angle (°)
a = 84.370α = 90.00
b = 158.050β = 90.00
c = 57.370γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
xia2data scaling
xia2data reduction
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-01-20
    Type: Initial release
  • Version 1.1: 2016-02-03
    Type: Database references