9KUH | pdb_00009kuh

Co-crystal structure of wild-type OYE2 with 2-(prop-1-en-2-yl)pyridine


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.43 Å
  • R-Value Free: 
    0.262 (Depositor), 0.254 (DCC) 
  • R-Value Work: 
    0.202 (Depositor), 0.196 (DCC) 
  • R-Value Observed: 
    0.205 (Depositor) 

Starting Model: experimental
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Literature

Enantioselective Radical Hydrocyanoalkylation of Alkenes via Photoenzymatic Catalysis.

Wu, D.Sun, Z.Wang, S.Yang, J.He, J.Lei, X.

(2025) JACS Au 5: 3625-3631

  • DOI: https://doi.org/10.1021/jacsau.5c00633
  • Primary Citation of Related Structures:  
    9KUH

  • PubMed Abstract: 

    Organic nitriles are significant in pharmaceuticals, agrochemicals, cosmetics, and materials. Although numerous cyanidation methods have been developed, more eco-friendly and green protocols for manufacturing alkyl nitriles are in high demand. Here, we report a photoenzymatic enantioselective intermolecular hydrocyanoalkylation of alkenes catalyzed by flavin-dependent "ene"-reductases. The discovery of stereocomplementary enzymes that provide access to both enantiomers of the high-value nitriles further showcases the synthetic applications of this method. Radical trapping, isotopic labeling, and spectroscopic experiments have elucidated the formation of a charge transfer complex at the protein active site. The single-electron reduction of the cyanoalkyl radical precursor by flavin hydroquinone yields a cyanoalkyl radical, which then undergoes intermolecular radical addition. This active site can stereoselectively control the radical-terminating hydrogen atom transfer, enabling the synthesis of enantioenriched γ-stereogenic nitriles. This work further expands the reactivity repertoire of biocatalytic transformations via non-natural radical mechanisms.


  • Organizational Affiliation
    • Beijing National Laboratory for Molecular Sciences, Key Laboratory of Bioorganic Chemistry and Molecular Engineering of the Ministry of Education, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
NADPH dehydrogenase 2
A, B, C, D
400Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: OYE2YHR179W
EC: 1.6.99.1
UniProt
Find proteins for Q03558 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore Q03558 
Go to UniProtKB:  Q03558
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ03558
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.43 Å
  • R-Value Free:  0.262 (Depositor), 0.254 (DCC) 
  • R-Value Work:  0.202 (Depositor), 0.196 (DCC) 
  • R-Value Observed: 0.205 (Depositor) 
Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 193.927α = 90
b = 99.198β = 105.9
c = 119.175γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
Aimlessdata scaling
DIALSdata reduction
PHENIXphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China--

Revision History  (Full details and data files)

  • Version 1.0: 2025-09-03
    Type: Initial release