RCSB PDB - 5UCW: Cytochrome P411 P-4 A82L A78V F263L amination catalyst

 5UCW

Cytochrome P411 P-4 A82L A78V F263L amination catalyst

  • Classification: OXIDOREDUCTASE
  • Organism(s): Priestia megaterium
  • Expression System: Escherichia coli
  • Mutation(s): Yes 

  • Deposited: 2016-12-22 Released: 2017-05-17 
  • Deposition Author(s): Zhang, R.K., Buller, A.R., Arnold, F.H.
  • Funding Organization(s): National Science Foundation (NSF, United States), National Institutes of Health/National Center for Research Resources (NIH/NCRR), National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.189 
  • R-Value Observed: 0.191 

Starting Model: experimental
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Ligand Structure Quality Assessment 

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This is version 1.4 of the entry. See complete history


Literature

Enantioselective, intermolecular benzylic C-H amination catalysed by an engineered iron-haem enzyme.

Prier, C.K.Zhang, R.K.Buller, A.R.Brinkmann-Chen, S.Arnold, F.H.

(2017) Nat Chem 9: 629-634

  • DOI: https://doi.org/10.1038/nchem.2783
  • Primary Citation of Related Structures:  
    5UCW

  • PubMed Abstract: 

    C-H bonds are ubiquitous structural units of organic molecules. Although these bonds are generally considered to be chemically inert, the recent emergence of methods for C-H functionalization promises to transform the way synthetic chemistry is performed. The intermolecular amination of C-H bonds represents a particularly desirable and challenging transformation for which no efficient, highly selective, and renewable catalysts exist. Here we report the directed evolution of an iron-containing enzymatic catalyst-based on a cytochrome P450 monooxygenase-for the highly enantioselective intermolecular amination of benzylic C-H bonds. The biocatalyst is capable of up to 1,300 turnovers, exhibits excellent enantioselectivities, and provides access to valuable benzylic amines. Iron complexes are generally poor catalysts for C-H amination: in this catalyst, the enzyme's protein framework confers activity on an otherwise unreactive iron-haem cofactor.


  • Organizational Affiliation

    Division of Chemistry and Chemical Engineering, California Institute of Technology, 1200 East California Boulevard, MC 210-41, Pasadena, California 91125, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
NADPH-cytochrome P450 reductase 102A1V3
A, B
472Priestia megateriumMutation(s): 17 
EC: 1.14.14.1 (UniProt), 1.6.2.4 (UniProt)
UniProt
Find proteins for P14779 (Priestia megaterium (strain ATCC 14581 / DSM 32 / CCUG 1817 / JCM 2506 / NBRC 15308 / NCIMB 9376 / NCTC 10342 / NRRL B-14308 / VKM B-512 / Ford 19))
Explore P14779 
Go to UniProtKB:  P14779
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP14779
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.189 
  • R-Value Observed: 0.191 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 123.864α = 90
b = 126.956β = 90
c = 62.567γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 

Created with Raphaël 2.3.0Worse 01 BetterLigand structure goodness of fit to experimental dataBest fitted HEMClick on this verticalbar to view details

Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Science Foundation (NSF, United States)United StatesMCB-1513007
National Institutes of Health/National Center for Research Resources (NIH/NCRR)United StatesS10RR027203
National Science Foundation (NSF, United States)United StatesDGE-1144469
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesF32G110851

Revision History  (Full details and data files)

  • Version 1.0: 2017-05-17
    Type: Initial release
  • Version 1.1: 2017-09-20
    Changes: Author supporting evidence
  • Version 1.2: 2018-11-07
    Changes: Data collection, Database references
  • Version 1.3: 2019-11-27
    Changes: Author supporting evidence
  • Version 1.4: 2023-10-04
    Changes: Data collection, Database references, Refinement description