6J5U

Ligand-triggered allosteric ADP release primes a plant NLR complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 2.0 of the entry. See complete history


Literature

Ligand-triggered allosteric ADP release primes a plant NLR complex.

Wang, J.Wang, J.Hu, M.Wu, S.Qi, J.Wang, G.Han, Z.Qi, Y.Gao, N.Wang, H.W.Zhou, J.M.Chai, J.

(2019) Science 364

  • DOI: https://doi.org/10.1126/science.aav5868
  • Primary Citation of Related Structures:  
    6J5U, 6J5V, 6J5W

  • PubMed Abstract: 

    Pathogen recognition by nucleotide-binding (NB), leucine-rich repeat (LRR) receptors (NLRs) plays roles in plant immunity. The Xanthomonas campestris pv. campestris effector AvrAC uridylylates the Arabidopsis PBL2 kinase, and the latter (PBL2 UMP ) acts as a ligand to activate the NLR ZAR1 precomplexed with the RKS1 pseudokinase. Here we report the cryo-electron microscopy structures of ZAR1-RKS1 and ZAR1-RKS1-PBL2 UMP in an inactive and intermediate state, respectively. The ZAR1 LRR domain, compared with animal NLR LRR domains, is differently positioned to sequester ZAR1 in an inactive state. Recognition of PBL2 UMP is exclusively through RKS1, which interacts with ZAR1 LRR PBL2 UMP binding stabilizes the RKS1 activation segment, which sterically blocks ZAR1 adenosine diphosphate (ADP) binding. This engenders a more flexible NB domain without conformational changes in the other ZAR1 domains. Our study provides a structural template for understanding plant NLRs.


  • Organizational Affiliation

    Beijing Advanced Innovation Center for Structural Biology, Tsinghua-Peking Joint Center for Life Sciences, Center for Plant Biology, School of Life Sciences, Tsinghua University, 100084 Beijing, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Disease resistance RPP13-like protein 4852Arabidopsis thalianaMutation(s): 0 
Gene Names: RPP13L4ZAR1At3g50950F18B3.230
UniProt
Find proteins for Q38834 (Arabidopsis thaliana)
Explore Q38834 
Go to UniProtKB:  Q38834
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UniProt GroupQ38834
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Probable serine/threonine-protein kinase PBL2B [auth C]426Arabidopsis thalianaMutation(s): 0 
Gene Names: PBL2APK2AKIN1At1g14370F14L17.14
EC: 2.7.11.1
UniProt
Find proteins for O49839 (Arabidopsis thaliana)
Explore O49839 
Go to UniProtKB:  O49839
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UniProt GroupO49839
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Protein kinase superfamily proteinC [auth B]351Arabidopsis thalianaMutation(s): 0 
Gene Names: F15B8.100Resistance related KinaSe 1RKS1At3g57710
UniProt
Find proteins for Q9SVY5 (Arabidopsis thaliana)
Explore Q9SVY5 
Go to UniProtKB:  Q9SVY5
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UniProt GroupQ9SVY5
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  • Reference Sequence
Small Molecules
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of ChinaChina31421001
National Natural Science Foundation of ChinaChina31420103906

Revision History  (Full details and data files)

  • Version 1.0: 2019-04-03
    Type: Initial release
  • Version 1.1: 2019-04-17
    Changes: Data collection, Database references, Structure summary
  • Version 1.2: 2019-11-06
    Changes: Data collection, Other
  • Version 2.0: 2023-04-05
    Changes: Advisory, Atomic model, Data collection, Data processing, Database references, Derived calculations, Non-polymer description, Refinement description, Source and taxonomy, Structure summary