7NCR | pdb_00007ncr

Cryo-EM structure of Pepper cryptic virus 1 VLP

• PDB DOI: https://doi.org/10.2210/pdb7NCR/pdb
• EM Map EMD-12270: EMDB EMDataResource

• Classification: VIRUS LIKE PARTICLE
• Organism(s): Pepper cryptic virus 1
• Expression System: Nicotiana benthamiana
• Mutation(s): No 


• Deposited: 2021-01-29 Released: 2021-05-19 
• Deposition Author(s): Byrne, M.J., Sainsbury, F., Ranson, N.A.
• Funding Organization(s): Biotechnology and Biological Sciences Research Council (BBSRC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.90 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structure of Pepper Cryptic Virus 1 VLP

Byrne, M.J., Sainsbury, F., Ranson, N.A., Kashyap, A., Esquirol, L.

To be published.

Biological Assembly 1  

Global Symmetry: Icosahedral - I  (Explore in 3D)
Global Stoichiometry: Homo 120-mer - A120 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: microscopy

Macromolecule Content 

• Total Structure Weight: 95.25 kDa 
• Atom Count: 5,588 
• Modeled Residue Count: 668 
• Deposited Residue Count: 824 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Coat protein	A, B	412	Pepper cryptic virus 1	Mutation(s): 0
UniProt
Find proteins for F8VBM8 (Pepper cryptic virus 1) Explore F8VBM8  Go to UniProtKB:  F8VBM8

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.90 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2021-05-19 
Deposition Author(s): Byrne, M.J., Sainsbury, F., Ranson, N.A.

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Funding Organization	Location	Grant Number
Biotechnology and Biological Sciences Research Council (BBSRC)	United Kingdom	BB/R00160X/1

Revision History  

• Version 1.0: 2021-05-19
  Type: Initial release
  
• Version 1.1: 2024-07-10
  Changes: Data collection, Database references, Derived calculations
• Version 1.2: 2025-07-02
  Changes: Data collection, Structure summary