7XOZ

Crystal structure of RPPT-TIR


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.52 Å
  • R-Value Free: 0.297 
  • R-Value Work: 0.258 
  • R-Value Observed: 0.260 

Starting Model: experimental
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Literature

TIR-catalyzed ADP-ribosylation reactions produce signaling molecules for plant immunity.

Jia, A.Huang, S.Song, W.Wang, J.Meng, Y.Sun, Y.Xu, L.Laessle, H.Jirschitzka, J.Hou, J.Zhang, T.Yu, W.Hessler, G.Li, E.Ma, S.Yu, D.Gebauer, J.Baumann, U.Liu, X.Han, Z.Chang, J.Parker, J.E.Chai, J.

(2022) Science 377: eabq8180-eabq8180

  • DOI: https://doi.org/10.1126/science.abq8180
  • Primary Citation of Related Structures:  
    7XJP, 7XOZ

  • PubMed Abstract: 

    Plant pathogen-activated immune signaling by nucleotide-binding leucine-rich repeat (NLR) receptors with an N-terminal Toll/interleukin-1 receptor (TIR) domain converges on Enhanced Disease Susceptibility 1 (EDS1) and its direct partners, Phytoalexin Deficient 4 (PAD4) or Senescence-Associated Gene 101 (SAG101). TIR-encoded nicotinamide adenine dinucleotide hydrolase (NADase) produces signaling molecules to promote exclusive EDS1-PAD4 and EDS1-SAG101 interactions with helper NLR subclasses. In this work, we show that TIR-containing proteins catalyze adenosine diphosphate (ADP)-ribosylation of adenosine triphosphate (ATP) and ADP ribose (ADPR) through ADPR polymerase-like and NADase activity, forming ADP-ribosylated ATP (ADPr-ATP) and ADPr-ADPR (di-ADPR), respectively. Specific binding of ADPr-ATP or di-ADPR allosterically promotes EDS1-SAG101 interaction with helper NLR N requirement gene 1A (NRG1A) in vitro and in planta. Our data reveal an enzymatic activity of TIRs that enables specific activation of the EDS1-SAG101-NRG1 immunity branch.


  • 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
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ADP-ribosyl cyclase/cyclic ADP-ribose hydrolaseA,
D [auth F]
165Arabidopsis thalianaMutation(s): 0 
Gene Names: AN1_LOCUS14779
EC: 3.2.2.6
UniProt
Find proteins for A0A654FE24 (Arabidopsis thaliana)
Explore A0A654FE24 
Go to UniProtKB:  A0A654FE24
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A654FE24
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
ADP-ribosyl cyclase/cyclic ADP-ribose hydrolaseB,
C [auth E]
165Arabidopsis thalianaMutation(s): 0 
Gene Names: AN1_LOCUS14764
EC: 3.2.2.6
UniProt
Find proteins for A0A654FCP3 (Arabidopsis thaliana)
Explore A0A654FCP3 
Go to UniProtKB:  A0A654FCP3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A654FCP3
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.52 Å
  • R-Value Free: 0.297 
  • R-Value Work: 0.258 
  • R-Value Observed: 0.260 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 69.799α = 90
b = 81.133β = 112.33
c = 70.713γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data scaling
PDB_EXTRACTdata extraction
HKL-2000data reduction
PHENIXphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Alexander von Humboldt FoundationGermany--
National Natural Science Foundation of China (NSFC)China--

Revision History  (Full details and data files)

  • Version 1.0: 2023-11-08
    Type: Initial release