8YN0

Crystal structure of NRG1C in complex with EDS1-SAG101-(ADPr-ATP)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.49 Å
  • R-Value Free: 
    0.238 (Depositor), 0.235 (DCC) 
  • R-Value Work: 
    0.199 (Depositor), 0.206 (DCC) 
  • R-Value Observed: 
    0.199 (Depositor) 

Starting Model: experimental
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Ligand Structure Quality Assessment 

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This is version 1.2 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 

  • DOI: https://doi.org/10.1038/s41586-024-08521-7
  • Primary Citation of 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.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Protein EDS1A [auth B],
E [auth A]
617Arabidopsis thalianaMutation(s): 0 
Gene Names: EDS1EDS1-90EDS1AAt3g48090T17F15.40
UniProt
Find proteins for Q9SU72 (Arabidopsis thaliana)
Explore Q9SU72 
Go to UniProtKB:  Q9SU72
Entity Groups  
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UniProt GroupQ9SU72
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Senescence-associated carboxylesterase 101B [auth E],
C
536Arabidopsis thalianaMutation(s): 0 
Gene Names: SAG101At5g14930F2G14.50
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
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Probable disease resistance protein At5g66890D [auth H],
F [auth D]
415Arabidopsis thalianaMutation(s): 0 
Gene Names: At5g66890MUD21.15
UniProt
Find proteins for Q9FKZ2 (Arabidopsis thaliana)
Explore Q9FKZ2 
Go to UniProtKB:  Q9FKZ2
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UniProt GroupQ9FKZ2
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.49 Å
  • R-Value Free:  0.238 (Depositor), 0.235 (DCC) 
  • R-Value Work:  0.199 (Depositor), 0.206 (DCC) 
  • R-Value Observed: 0.199 (Depositor) 
Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 91.521α = 90
b = 154.914β = 89.69
c = 171.11γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data scaling
HKL-2000data reduction
PHENIXphasing

Structure Validation

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Ligand Structure Quality Assessment 

Created with Raphaël 2.3.0Worse 01 BetterLigand structure goodness of fit to experimental dataBest fitted APRClick on this verticalbar to view detailsBest fitted ATPClick on this verticalbar to view details

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: Database references
  • Version 1.2: 2025-02-26
    Changes: Database references