7XED

Crystal Structure of OsCIE1-Ubox and OsUBC8 complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.231 
  • R-Value Observed: 0.233 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Release of a ubiquitin brake activates OsCERK1-triggered immunity in rice.

Wang, G.Chen, X.Yu, C.Shi, X.Lan, W.Gao, C.Yang, J.Dai, H.Zhang, X.Zhang, H.Zhao, B.Xie, Q.Yu, N.He, Z.Zhang, Y.Wang, E.

(2024) Nature 629: 1158-1164

  • DOI: https://doi.org/10.1038/s41586-024-07418-9
  • Primary Citation of Related Structures:  
    7XED, 8HPB, 8HQB

  • PubMed Abstract: 

    Plant pattern-recognition receptors perceive microorganism-associated molecular patterns to activate immune signalling 1,2 . Activation of the pattern-recognition receptor kinase CERK1 is essential for immunity, but tight inhibition of receptor kinases in the absence of pathogen is crucial to prevent autoimmunity 3,4 . Here we find that the U-box ubiquitin E3 ligase OsCIE1 acts as a molecular brake to inhibit OsCERK1 in rice. During homeostasis, OsCIE1 ubiquitinates OsCERK1, reducing its kinase activity. In the presence of the microorganism-associated molecular pattern chitin, active OsCERK1 phosphorylates OsCIE1 and blocks its E3 ligase activity, thus releasing the brake and promoting immunity. Phosphorylation of a serine within the U-box of OsCIE1 prevents its interaction with E2 ubiquitin-conjugating enzymes and serves as a phosphorylation switch. This phosphorylation site is conserved in E3 ligases from plants to animals. Our work identifies a ligand-released brake that enables dynamic immune regulation.


  • Organizational Affiliation

    National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
UBC core domain-containing proteinA,
C [auth B]
150Oryza sativa Japonica GroupMutation(s): 0 
Gene Names: OsJ_21490
UniProt
Find proteins for A3BC59 (Oryza sativa subsp. japonica)
Explore A3BC59 
Go to UniProtKB:  A3BC59
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA3BC59
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
U-box domain-containing protein 12B [auth C],
D
80Oryza sativa Japonica GroupMutation(s): 0 
Gene Names: PUB12Os06g0102700LOC_Os06g01304OSJNBa0075G19.19-1
EC: 2.3.2.27
UniProt
Find proteins for Q5VRH9 (Oryza sativa subsp. japonica)
Explore Q5VRH9 
Go to UniProtKB:  Q5VRH9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ5VRH9
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.231 
  • R-Value Observed: 0.233 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 87.29α = 90
b = 132.55β = 90
c = 47.34γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Chinese Academy of SciencesChinaYSBR-011

Revision History  (Full details and data files)

  • Version 1.0: 2023-10-04
    Type: Initial release
  • Version 1.1: 2024-05-22
    Changes: Database references
  • Version 1.2: 2024-06-19
    Changes: Database references