7P8K

Crystal structure of in planta processed AvrRps4 in complex with the WRKY domain of RRS1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.65 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.245 
  • R-Value Observed: 0.247 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Perception of structurally distinct effectors by the integrated WRKY domain of a plant immune receptor.

Mukhi, N.Brown, H.Gorenkin, D.Ding, P.Bentham, A.R.Stevenson, C.E.M.Jones, J.D.G.Banfield, M.J.

(2021) Proc Natl Acad Sci U S A 118

  • DOI: https://doi.org/10.1073/pnas.2113996118
  • Primary Citation of Related Structures:  
    7P8K

  • PubMed Abstract: 

    Plants use intracellular nucleotide-binding domain (NBD) and leucine-rich repeat (LRR)-containing immune receptors (NLRs) to detect pathogen-derived effector proteins. The Arabidopsis NLR pair RRS1-R/RPS4 confers disease resistance to different bacterial pathogens by perceiving the structurally distinct effectors AvrRps4 from Pseudomonas syringae pv. pisi and PopP2 from Ralstonia solanacearum via an integrated WRKY domain in RRS1-R. How the WRKY domain of RRS1 (RRS1 WRKY ) perceives distinct classes of effector to initiate an immune response is unknown. Here, we report the crystal structure of the in planta processed C-terminal domain of AvrRps4 (AvrRps4 C ) in complex with RRS1 WRKY Perception of AvrRps4 C by RRS1 WRKY is mediated by the β2-β3 segment of RRS1 WRKY that binds an electronegative patch on the surface of AvrRps4 C Structure-based mutations that disrupt AvrRps4 C -RRS1 WRKY interactions in vitro compromise RRS1/RPS4-dependent immune responses. We also show that AvrRps4 C can associate with the WRKY domain of the related but distinct RRS1B/RPS4B NLR pair, and the DNA-binding domain of At WRKY41, with similar binding affinities and how effector binding interferes with WRKY-W-box DNA interactions. This work demonstrates how integrated domains in plant NLRs can directly bind structurally distinct effectors to initiate immunity.


  • Organizational Affiliation

    Department of Biochemistry and Metabolism, John Innes Centre, Norwich NR4 7UH, United Kingdom.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Disease resistance protein RRS1A [auth B]80Arabidopsis thalianaMutation(s): 0 
Gene Names: RRS1RCH2RRS1-RWRKY52
UniProt
Find proteins for C4B7M5 (Arabidopsis thaliana)
Explore C4B7M5 
Go to UniProtKB:  C4B7M5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupC4B7M5
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Avirulence protein,Avirulence proteinB [auth A]90Pseudomonas syringaeMutation(s): 0 
Gene Names: avrRps4
UniProt
Find proteins for Q52432 (Pseudomonas syringae)
Explore Q52432 
Go to UniProtKB:  Q52432
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ52432
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ZN (Subject of Investigation/LOI)
Query on ZN

Download Ideal Coordinates CCD File 
C [auth B]ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.65 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.245 
  • R-Value Observed: 0.247 
  • Space Group: P 61 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 105.607α = 90
b = 105.607β = 90
c = 66.987γ = 120
Software Package:
Software NamePurpose
Aimlessdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
MOSFLMdata reduction
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Research Council (ERC)United Kingdom669926
Biotechnology and Biological Sciences Research Council (BBSRC)United KingdomBB/M011216/1
Biotechnology and Biological Sciences Research Council (BBSRC)United KingdomBB/P012574
Biotechnology and Biological Sciences Research Council (BBSRC)United KingdomBBS/E/J/000PR9795

Revision History  (Full details and data files)

  • Version 1.0: 2021-08-04
    Type: Initial release
  • Version 1.1: 2022-02-02
    Changes: Database references
  • Version 1.2: 2024-01-31
    Changes: Data collection, Refinement description