6Z5Y

Structure of a novel LPMO from Phytophthora infestans


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.01 Å
  • R-Value Free: 0.164 
  • R-Value Work: 0.143 
  • R-Value Observed: 0.144 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Secreted pectin monooxygenases drive plant infection by pathogenic oomycetes.

Sabbadin, F.Urresti, S.Henrissat, B.Avrova, A.O.Welsh, L.R.J.Lindley, P.J.Csukai, M.Squires, J.N.Walton, P.H.Davies, G.J.Bruce, N.C.Whisson, S.C.McQueen-Mason, S.J.

(2021) Science 373: 774-779

  • DOI: https://doi.org/10.1126/science.abj1342
  • Primary Citation of Related Structures:  
    6Z5Y

  • PubMed Abstract: 

    The oomycete Phytophthora infestans is a damaging crop pathogen and a model organism to study plant-pathogen interactions. We report the discovery of a family of copper-dependent lytic polysaccharide monooxygenases (LPMOs) in plant pathogenic oomycetes and its role in plant infection by P. infestans We show that LPMO-encoding genes are up-regulated early during infection and that the secreted enzymes oxidatively cleave the backbone of pectin, a charged polysaccharide in the plant cell wall. The crystal structure of the most abundant of these LPMOs sheds light on its ability to recognize and degrade pectin, and silencing the encoding gene in P. infestans inhibits infection of potato, indicating a role in host penetration. The identification of LPMOs as virulence factors in pathogenic oomycetes opens up opportunities in crop protection and food security.


  • Organizational Affiliation

    Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, UK. federico.sabbadin@york.ac.uk simon.mcqueenmason@york.ac.uk.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Lytic Polysaccharide Monooxygenase
A, B
180Phytophthora infestans T30-4Mutation(s): 0 
Gene Names: PITG_04949
UniProt
Find proteins for D0N2F7 (Phytophthora infestans (strain T30-4))
Explore D0N2F7 
Go to UniProtKB:  D0N2F7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupD0N2F7
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.01 Å
  • R-Value Free: 0.164 
  • R-Value Work: 0.143 
  • R-Value Observed: 0.144 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 36.293α = 83.91
b = 45.458β = 71.85
c = 53.687γ = 83.78
Software Package:
Software NamePurpose
REFMACrefinement
Aimlessdata scaling
PDB_EXTRACTdata extraction
xia2data reduction
Fragonphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Biotechnology and Biological Sciences Research Council (BBSRC)United KingdomBB/R007705/1

Revision History  (Full details and data files)

  • Version 1.0: 2021-08-11
    Type: Initial release
  • Version 1.1: 2021-09-29
    Changes: Data collection, Database references
  • Version 1.2: 2024-11-13
    Changes: Data collection, Structure summary