5TEC

Crystal structure of the TIR domain from the Arabidopsis thaliana NLR protein SNC1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.178 
  • R-Value Observed: 0.180 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Multiple functional self-association interfaces in plant TIR domains.

Zhang, X.Bernoux, M.Bentham, A.R.Newman, T.E.Ve, T.Casey, L.W.Raaymakers, T.M.Hu, J.Croll, T.I.Schreiber, K.J.Staskawicz, B.J.Anderson, P.A.Sohn, K.H.Williams, S.J.Dodds, P.N.Kobe, B.

(2017) Proc Natl Acad Sci U S A 114: E2046-E2052

  • DOI: https://doi.org/10.1073/pnas.1621248114
  • Primary Citation of Related Structures:  
    5TEB, 5TEC

  • PubMed Abstract: 

    The self-association of Toll/interleukin-1 receptor/resistance protein (TIR) domains has been implicated in signaling in plant and animal immunity receptors. Structure-based studies identified different TIR-domain dimerization interfaces required for signaling of the plant nucleotide-binding oligomerization domain-like receptors (NLRs) L6 from flax and disease resistance protein RPS4 from Arabidopsis Here we show that the crystal structure of the TIR domain from the Arabidopsis NLR suppressor of npr1-1, constitutive 1 (SNC1) contains both an L6-like interface involving helices αD and αE (DE interface) and an RPS4-like interface involving helices αA and αE (AE interface). Mutations in either the AE- or DE-interface region disrupt cell-death signaling activity of SNC1, L6, and RPS4 TIR domains and full-length L6 and RPS4. Self-association of L6 and RPS4 TIR domains is affected by mutations in either region, whereas only AE-interface mutations affect SNC1 TIR-domain self-association. We further show two similar interfaces in the crystal structure of the TIR domain from the Arabidopsis NLR recognition of Peronospora parasitica 1 (RPP1). These data demonstrate that both the AE and DE self-association interfaces are simultaneously required for self-association and cell-death signaling in diverse plant NLRs.


  • Organizational Affiliation

    School of Chemistry and Molecular Biosciences, Australian Infectious Diseases Research Centre and Institute for Molecular Bioscience, University of Queensland, Brisbane, QLD 4072, Australia.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Protein SUPPRESSOR OF npr1-1, CONSTITUTIVE 1
A, B
174Arabidopsis thalianaMutation(s): 0 
Gene Names: SNC1BALAt4g16890dl4475cFCAALL.51
UniProt
Find proteins for O23530 (Arabidopsis thaliana)
Explore O23530 
Go to UniProtKB:  O23530
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO23530
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.178 
  • R-Value Observed: 0.180 
  • Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 82.175α = 90
b = 82.175β = 90
c = 124.114γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
SCALAdata scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Australian Research Council (ARC)Australia--

Revision History  (Full details and data files)

  • Version 1.0: 2017-02-01
    Type: Initial release
  • Version 1.1: 2017-02-22
    Changes: Database references
  • Version 1.2: 2017-03-22
    Changes: Database references
  • Version 1.3: 2020-01-01
    Changes: Author supporting evidence, Data collection
  • Version 1.4: 2023-10-04
    Changes: Data collection, Database references, Refinement description