5M0N

Crystal structure of cytochrome P450 OleT in complex with formate


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.44 Å
  • R-Value Free: 0.173 
  • R-Value Work: 0.135 
  • R-Value Observed: 0.136 

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This is version 1.2 of the entry. See complete history


Literature

Catalytic Determinants of Alkene Production by the Cytochrome P450 Peroxygenase OleTJE.

Matthews, S.Belcher, J.D.Tee, K.L.Girvan, H.M.McLean, K.J.Rigby, S.E.Levy, C.W.Leys, D.Parker, D.A.Blankley, R.T.Munro, A.W.

(2017) J Biol Chem 292: 5128-5143

  • DOI: 10.1074/jbc.M116.762336
  • Primary Citation of Related Structures:  
    5M0P, 5M0O, 5M0N

  • PubMed Abstract: 
  • The Jeotgalicoccus sp. peroxygenase cytochrome P450 OleT JE (CYP152L1) is a hydrogen peroxide-driven oxidase that catalyzes oxidative decarboxylation of fatty acids, producing terminal alkenes with applications as fine chemicals and biofuels ...

    The Jeotgalicoccus sp. peroxygenase cytochrome P450 OleT JE (CYP152L1) is a hydrogen peroxide-driven oxidase that catalyzes oxidative decarboxylation of fatty acids, producing terminal alkenes with applications as fine chemicals and biofuels. Understanding mechanisms that favor decarboxylation over fatty acid hydroxylation in OleT JE could enable protein engineering to improve catalysis or to introduce decarboxylation activity into P450s with different substrate preferences. In this manuscript, we have focused on OleT JE active site residues Phe 79 , His 85 , and Arg 245 to interrogate their roles in substrate binding and catalytic activity. His 85 is a potential proton donor to reactive iron-oxo species during substrate decarboxylation. The H85Q mutant substitutes a glutamine found in several peroxygenases that favor fatty acid hydroxylation. H85Q OleT JE still favors alkene production, suggesting alternative protonation mechanisms. However, the mutant undergoes only minor substrate binding-induced heme iron spin state shift toward high spin by comparison with WT OleT JE , indicating the key role of His 85 in this process. Phe 79 interacts with His 85 , and Phe 79 mutants showed diminished affinity for shorter chain (C10-C16) fatty acids and weak substrate-induced high spin conversion. F79A OleT JE is least affected in substrate oxidation, whereas the F79W/Y mutants exhibit lower stability and cysteine thiolate protonation on reduction. Finally, Arg 245 is crucial for binding the substrate carboxylate, and R245E/L mutations severely compromise activity and heme content, although alkene products are formed from some substrates, including stearic acid (C18:0). The results identify crucial roles for the active site amino acid trio in determining OleT JE catalytic efficiency in alkene production and in regulating protein stability, heme iron coordination, and spin state.


    Organizational Affiliation

    From the Manchester Institute of Biotechnology, School of Chemistry, University of Manchester, Manchester M1 7DN, United Kingdom, Andrew.Munro@Manchester.ac.uk.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Terminal olefin-forming fatty acid decarboxylaseA428Jeotgalicoccus sp. ATCC 8456Mutation(s): 0 
UniProt
Find proteins for E9NSU2 (Jeotgalicoccus sp. ATCC 8456)
Explore E9NSU2 
Go to UniProtKB:  E9NSU2
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
HEM (Subject of Investigation/LOI)
Query on HEM

Download Ideal Coordinates CCD File 
B [auth A]PROTOPORPHYRIN IX CONTAINING FE
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
 Ligand Interaction
SO4
Query on SO4

Download Ideal Coordinates CCD File 
C [auth A]SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
FMT
Query on FMT

Download Ideal Coordinates CCD File 
D [auth A]FORMIC ACID
C H2 O2
BDAGIHXWWSANSR-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.44 Å
  • R-Value Free: 0.173 
  • R-Value Work: 0.135 
  • R-Value Observed: 0.136 
  • Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 60.17α = 90
b = 60.17β = 90
c = 241.7γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling

Structure Validation

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Ligand Structure Quality Assessment  



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Biotechnology and Biological Sciences Research CouncilUnited KingdomBB/K017802/1
Biotechnology and Biological Sciences Research CouncilUnited KingdomBB/N006275/1

Revision History  (Full details and data files)

  • Version 1.0: 2017-01-11
    Type: Initial release
  • Version 1.1: 2017-08-30
    Changes: Author supporting evidence
  • Version 1.2: 2017-12-06
    Changes: Database references