4WX0

UndA complexed with beta-hydroxydodecanoic acid


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.185 
  • R-Value Work: 0.137 
  • R-Value Observed: 0.139 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Microbial biosynthesis of medium-chain 1-alkenes by a nonheme iron oxidase.

Rui, Z.Li, X.Zhu, X.Liu, J.Domigan, B.Barr, I.Cate, J.H.Zhang, W.

(2014) Proc Natl Acad Sci U S A 111: 18237-18242

  • DOI: 10.1073/pnas.1419701112
  • Primary Citation of Related Structures:  
    4WX0, 4WWJ, 4WWZ

  • PubMed Abstract: 
  • Aliphatic medium-chain 1-alkenes (MCAEs, ∼10 carbons) are "drop-in" compatible next-generation fuels and precursors to commodity chemicals. Mass production of MCAEs from renewable resources holds promise for mitigating dependence on fossil hydrocarbons. An MCAE, such as 1-undecene, is naturally produced by Pseudomonas as a semivolatile metabolite through an unknown biosynthetic pathway ...

    Aliphatic medium-chain 1-alkenes (MCAEs, ∼10 carbons) are "drop-in" compatible next-generation fuels and precursors to commodity chemicals. Mass production of MCAEs from renewable resources holds promise for mitigating dependence on fossil hydrocarbons. An MCAE, such as 1-undecene, is naturally produced by Pseudomonas as a semivolatile metabolite through an unknown biosynthetic pathway. We describe here the discovery of a single gene conserved in Pseudomonas responsible for 1-undecene biosynthesis. The encoded enzyme is able to convert medium-chain fatty acids (C10-C14) into their corresponding terminal olefins using an oxygen-activating, nonheme iron-dependent mechanism. Both biochemical and X-ray crystal structural analyses suggest an unusual mechanism of β-hydrogen abstraction during fatty acid substrate activation. Our discovery unveils previously unidentified chemistry in the nonheme Fe(II) enzyme family, provides an opportunity to explore the biology of 1-undecene in Pseudomonas, and paves the way for tailored bioconversion of renewable raw materials to MCAE-based biofuels and chemical commodities.


    Organizational Affiliation

    Energy Biosciences Institute, Departments of Chemical and Biomolecular Engineering, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720 wjzhang@berkeley.edu.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
TENA/THI-4 family protein AB263Pseudomonas protegens Pf-5Mutation(s): 0 
Gene Names: PFL_4321
Find proteins for Q4K8M0 (Pseudomonas fluorescens (strain ATCC BAA-477 / NRRL B-23932 / Pf-5))
Explore Q4K8M0 
Go to UniProtKB:  Q4K8M0
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.185 
  • R-Value Work: 0.137 
  • R-Value Observed: 0.139 
  • Space Group: P 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 67.41α = 90
b = 73.99β = 90
c = 142.51γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
SCALAdata scaling
PHASERphasing
PHENIXrefinement

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2014-11-13 
  • Released Date: 2014-12-24 
  • Deposition Author(s): Li, X., Cate, J.D.H.

Funding OrganizationLocationGrant Number
Energy Biosciences Institute and National Cancer InstituteUnited States--

Revision History  (Full details and data files)

  • Version 1.0: 2014-12-24
    Type: Initial release
  • Version 1.1: 2015-01-07
    Changes: Database references