9CC8 | pdb_00009cc8

Hexameric state of the NRC4 resistosome

• PDB DOI: https://doi.org/10.2210/pdb9CC8/pdb
• EM Map EMD-45437: EMDB EMDataResource

• Classification: PLANT PROTEIN
• Organism(s): Nicotiana benthamiana
• Mutation(s): No 


• Deposited: 2024-06-21 Released: 2024-09-11 
• Deposition Author(s): Liu, F., Yang, Z., Nogales, E., Staskawicz, B.J.
• Funding Organization(s): Howard Hughes Medical Institute (HHMI)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.66 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Activation of the helper NRC4 immune receptor forms a hexameric resistosome.

Liu, F., Yang, Z., Wang, C., You, Z., Martin, R., Qiao, W., Huang, J., Jacob, P., Dangl, J.L., Carette, J.E., Luan, S., Nogales, E., Staskawicz, B.J.

(2024) Cell 187: 4877-4889.e15

• PubMed: 39094568 
• DOI: https://doi.org/10.1016/j.cell.2024.07.013
• Primary Citation of Related Structures:  
  9CC8, 9CC9


• PubMed Abstract: 
  

  Innate immune responses to microbial pathogens are regulated by intracellular receptors known as nucleotide-binding leucine-rich repeat receptors (NLRs) in both the plant and animal kingdoms. Across plant innate immune systems, "helper" NLRs (hNLRs) work in coordination with "sensor" NLRs (sNLRs) to modulate disease resistance signaling pathways. Activation mechanisms of hNLRs based on structures are unknown. Our research reveals that the hNLR, known as NLR required for cell death 4 (NRC4), assembles into a hexameric resistosome upon activation by the sNLR Bs2 and the pathogenic effector AvrBs2. This conformational change triggers immune responses by facilitating the influx of calcium ions (Ca ²⁺ ) into the cytosol. The activation mimic alleles of NRC2, NRC3, or NRC4 alone did not induce Ca ²⁺ influx and cell death in animal cells, suggesting that unknown plant-specific factors regulate NRCs' activation in plants. These findings significantly advance our understanding of the regulatory mechanisms governing plant immune responses.

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Organizational Affiliation: 
• Department of Plant and Microbial Biology, University of California, Berkeley, Berkeley, CA, USA; Innovative Genomics Institute, University of California, Berkeley, Berkeley, CA, USA.
California Institute for Quantitative Biosciences (QB3), University of California, Berkeley, Berkeley, CA, USA; Howard Hughes Medical Institute, University of California, Berkeley, Berkeley, CA, USA. Electronic address: [e-mail].
Department of Plant and Microbial Biology, University of California, Berkeley, Berkeley, CA, USA.
Innovative Genomics Institute, University of California, Berkeley, Berkeley, CA, USA.
Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA, USA.
Department of Molecular Biology, Princeton University, Princeton, NJ, USA.
Department of Biology and Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA.
California Institute for Quantitative Biosciences (QB3), University of California, Berkeley, Berkeley, CA, USA; Howard Hughes Medical Institute, University of California, Berkeley, Berkeley, CA, USA; Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA, USA; Molecular Biophysics and Integrative Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Department of Plant and Microbial Biology, University of California, Berkeley, Berkeley, CA, USA; Innovative Genomics Institute, University of California, Berkeley, Berkeley, CA, USA. Electronic address: [e-mail].

Biological Assembly 1  

Global Symmetry: Cyclic - C6  (Explore in 3D)
Global Stoichiometry: Homo 6-mer - A6 

Biological assembly 1 assigned by authors and generated by (software)

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 603.49 kDa 
• Atom Count: 40,470 
• Modeled Residue Count: 5,028 
• Deposited Residue Count: 5,286 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NLR-required for cell death 4	A, B, C, D, E, F	881	Nicotiana benthamiana	Mutation(s): 0
UniProt
Find proteins for A0A5J6DCT7 (Nicotiana benthamiana) Explore A0A5J6DCT7  Go to UniProtKB:  A0A5J6DCT7

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ATP (Subject of Investigation/LOI)	G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	ADENOSINE-5'-TRIPHOSPHATE C10 H16 N5 O13 P3 ZKHQWZAMYRWXGA-KQYNXXCUSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.66 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-09-11 
Deposition Author(s): Liu, F., Yang, Z., Nogales, E., Staskawicz, B.J.

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Funding Organization	Location	Grant Number
Howard Hughes Medical Institute (HHMI)	United States	--

Revision History  

• Version 1.0: 2024-09-11
  Type: Initial release
  
• Version 1.1: 2024-09-18
  Changes: Data collection, Database references