Structure of the NB-ARC domain from the Tomato immune receptor NRC1

Experimental Data Snapshot

  • Resolution: 2.50 Å
  • R-Value Free: 0.337 
  • R-Value Work: 0.305 
  • R-Value Observed: 0.307 

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Structural and biochemical studies of an NB-ARC domain from a plant NLR immune receptor.

Steele, J.F.C.Hughes, R.K.Banfield, M.J.

(2019) PLoS One 14: e0221226-e0221226

  • DOI: https://doi.org/10.1371/journal.pone.0221226
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    Plant NLRs are modular immune receptors that trigger rapid cell death in response to attempted infection by pathogens. A highly conserved nucleotide-binding domain shared with APAF-1, various R-proteins and CED-4 (NB-ARC domain) is proposed to act as a molecular switch, cycling between ADP (repressed) and ATP (active) bound forms. Studies of plant NLR NB-ARC domains have revealed functional similarities to mammalian homologues, and provided insight into potential mechanisms of regulation. However, further advances have been limited by difficulties in obtaining sufficient yields of protein suitable for structural and biochemical techniques. From protein expression screens in Escherichia coli and Sf9 insect cells, we defined suitable conditions to produce the NB-ARC domain from the tomato NLR NRC1. Biophysical analyses of this domain showed it is a folded, soluble protein. Structural studies revealed the NRC1 NB-ARC domain had co-purified with ADP, and confirmed predicted structural similarities between plant NLR NB-ARC domains and their mammalian homologues.

  • Organizational Affiliation

    Department of Biological Chemistry, John Innes Centre, Norwich Research Park, Norwich, England, United Kingdom.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
NRC1A [auth N]347Solanum lycopersicumMutation(s): 0 
Find proteins for A0A3Q7EK40 (Solanum lycopersicum)
Explore A0A3Q7EK40 
Go to UniProtKB:  A0A3Q7EK40
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3Q7EK40
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on ADP

Download Ideal Coordinates CCD File 
C10 H15 N5 O10 P2
Experimental Data & Validation

Experimental Data

  • Resolution: 2.50 Å
  • R-Value Free: 0.337 
  • R-Value Work: 0.305 
  • R-Value Observed: 0.307 
  • Space Group: P 64
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 110.517α = 90
b = 110.517β = 90
c = 53.338γ = 120
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
xia2data reduction
xia2data scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2019-07-03
    Type: Initial release
  • Version 1.1: 2019-08-21
    Changes: Data collection
  • Version 1.2: 2019-09-11
    Changes: Data collection, Database references