2BFU | pdb_00002bfu

X-ray structure of CPMV top component

• PDB DOI: https://doi.org/10.2210/pdb2BFU/pdb

• Classification: VIRUS
• Organism(s): Cowpea mosaic virus
• Mutation(s): No 


• Deposited: 2004-12-13 Released: 2005-01-12 
• Deposition Author(s): Ochoa, W.F., Chatterji, A., Lin, T., Johnson, J.E.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 4.00 Å
• R-Value Work: 
  0.230 (Depositor), 0.497 (DCC) 
• R-Value Observed: 
  0.230 (Depositor) 

Literature

Generation and Structural Analysis of Reactive Empty Particles Derived from an Icosahedral Virus.

Ochoa, W.F., Chatterji, A., Lin, T., Johnson, J.E.

(2006) Chem Biol 13: 771

• PubMed: 16873025 
• DOI: https://doi.org/10.1016/j.chembiol.2006.05.014
• Primary Citation Related Structures: 
  2BFU


• PubMed Abstract: 
  

  Chemical and genetic modifications on the surface of viral protein cages confer unique properties to the virus particles with potential nano and biotechnological applications. The enclosed space in the interior of the virus particles further increases its versatility as a nanomaterial. In this paper, we report a simple method to generate a high yield of stable cowpea mosaic virus (CPMV) empty capsids from their native nucleoprotein counterparts by removing the encapsidated viral genome without compromising the integrity of the protein coat. Biochemical and structural comparison of artificially generated empty particles did not reveal any distinguishable differences from CPMV particles containing viral RNA. Preliminary results on the use of artificially produced empty CPMV capsids as a carrier capsule are described.

---

Organizational Affiliation: 
• Department of Molecular Biology and Center for Integrative Molecular Biosciences, The Scripps Research Institute, La Jolla, California 92037, USA.

Biological Assembly 1  

Global Symmetry: Icosahedral - I  (Explore in 3D)
Global Stoichiometry: Hetero 120-mer - A60B60 

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

Macromolecule Content 

• Total Structure Weight: 61.82 kDa 
• Atom Count: 4,343 
• Modeled Residue Count: 558 
• Deposited Residue Count: 558 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
COWPEA MOSAIC VIRUS, LARGE (L) SUBUNIT	A [auth L]	369	Cowpea mosaic virus	Mutation(s): 0
UniProt
Find proteins for P03599 (Cowpea mosaic virus (strain SB)) Explore P03599  Go to UniProtKB:  P03599

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
COWPEA MOSAIC VIRUS, SMALL (S) SUBUNIT	B [auth S]	189	Cowpea mosaic virus	Mutation(s): 0
UniProt
Find proteins for P03599 (Cowpea mosaic virus (strain SB)) Explore P03599  Go to UniProtKB:  P03599

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 4.00 Å
• R-Value Work:  0.230 (Depositor), 0.497 (DCC) 
• R-Value Observed: 0.230 (Depositor) 

Space Group: I 2 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 311.407	α = 90
b = 311.407	β = 90
c = 311.407	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-01-12 
Deposition Author(s): Ochoa, W.F., Chatterji, A., Lin, T., Johnson, J.E.

Revision History  

• Version 1.0: 2005-01-12
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2018-04-04
  Changes: Data collection
• Version 1.4: 2019-05-22
  Changes: Data collection, Refinement description
• Version 1.5: 2019-10-23
  Changes: Data collection, Other
• Version 1.6: 2024-10-16
  Changes: Data collection, Database references, Derived calculations, Structure summary