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 8YN1 | pdb_00008yn1

Cryo-EM structure of NRG1A(LRR) in complex with EDS1-SAG101-(ADPr-ATP)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.09 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 8YN1

This is version 1.3 of the entry. See complete history. 

Literature

Balanced plant helper NLR activation by a modified host protein complex.

Huang, S., Wang, J., Song, R., Jia, A., Xiao, Y., Sun, Y., Wang, L., Mahr, D., Wu, Z., Han, Z., Li, X., Parker, J.E., Chai, J.

(2025) Nature 639: 447-455

  • DOI: https://doi.org/10.1038/s41586-024-08521-7
  • Primary Citation Related Structures: 
    8YN0, 8YN1

  • PubMed Abstract: 

    Nucleotide-binding leucine-rich repeat (NLR) receptors play crucial roles in plant immunity by sensing pathogen effectors 1 . In Arabidopsis, certain sensor NLRs function as NADases to catalyse the production of second messengers 2,3 , which can be recognized by enhanced disease susceptibility 1 (EDS1) with its partner senescence-associated gene 101 (SAG101), to activate helper NLR N requirement gene 1 (NRG1) 4 . A cryoelectron microscopy structure shows that second-messenger-activated EDS1-SAG101 mainly contacts the leucine-rich repeat domain of NRG1A to mediate the formation of an induced EDS1-SAG101-NRG1A complex. Structural comparisons show that binding of a second messenger induces conformational changes in EDS1-SAG101, which are recognized by NRG1A, leading to its allosteric activation. We further show that an inhibitory NRG1 family member, NRG1C, efficiently outcompetes NRG1A for binding to second-messenger-activated EDS1-SAG101. These findings uncover mechanisms for NRG1A activation through its recognition of a modified host EDS1-SAG101 complex, and NRG1A inhibition by NRG1C through sequestration of the activated EDS1-SAG101, thus shedding light on the activation and constraint of a central plant immune response system.


  • Organizational Affiliation: 
    • Research Center for Industries of the Future and School of Life Sciences, Westlake University, Hangzhou, China.

Macromolecule Content 

  • Total Structure Weight: 179.92 kDa 
  • Atom Count: 12,186 
  • Modeled Residue Count: 1,495 
  • Deposited Residue Count: 1,553 
  • Unique protein chains: 3

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Protein EDS1614Arabidopsis thalianaMutation(s): 0 
Gene Names: EDS1, EDS1-90, EDS1A, At3g48090, T17F15.40
UniProt
Find proteins for Q9SU72 (Arabidopsis thaliana)
Explore Q9SU72 
Go to UniProtKB:  Q9SU72
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UniProt GroupQ9SU72
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Senescence-associated carboxylesterase 101533Arabidopsis thalianaMutation(s): 0 
Gene Names: SAG101, At5g14930, F2G14.50
EC: 3.1.1.1
UniProt
Find proteins for Q4F883 (Arabidopsis thaliana)
Explore Q4F883 
Go to UniProtKB:  Q4F883
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UniProt GroupQ4F883
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
Probable disease resistance protein At5g66900406Arabidopsis thalianaMutation(s): 0 
Gene Names: At5g66900, MUD21.16
UniProt
Find proteins for Q9FKZ1 (Arabidopsis thaliana)
Explore Q9FKZ1 
Go to UniProtKB:  Q9FKZ1
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9FKZ1
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.09 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China--

Revision History  (Full details and data files)

  • Version 1.0: 2024-12-11
    Type: Initial release
  • Version 1.1: 2025-02-19
    Changes: Data collection, Database references
  • Version 1.2: 2025-02-26
    Changes: Data collection, Database references
  • Version 1.3: 2025-03-26
    Changes: Data collection, Database references