1NY7

COWPEA MOSAIC VIRUS (CPMV)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Work: 0.202 

wwPDB Validation 3D Report Full Report


This is version 1.4 of the entry. See complete history

Literature

The Refined Crystal Structure of Cowpea Mosaic Virus at 2.8A Resolution

Lin, T.Chen, Z.Usha, R.Stauffacher, C.V.Dai, J.-B.Schmidt, T.Johnson, J.E.

(1999) Virology 265: 20-34

  • DOI: 10.1006/viro.1999.0038

  • PubMed Abstract: 
  • Comoviruses are a group of plant viruses in the picornavirus superfamily. The type member of comoviruses, cowpea mosaic virus (CPMV), was crystallized in the cubic space group I23, a = 317 A and the hexagonal space group P6(1)22, a = 451 A, c = 1038 ...

    Comoviruses are a group of plant viruses in the picornavirus superfamily. The type member of comoviruses, cowpea mosaic virus (CPMV), was crystallized in the cubic space group I23, a = 317 A and the hexagonal space group P6(1)22, a = 451 A, c = 1038 A. Structures of three closely similar nucleoprotein particles were determined in the cubic form. The roughly 300-A capsid was similar to the picornavirus capsid displaying a pseudo T = 3 (P = 3) surface lattice. The three beta-sandwich domains adopt two orientations, one with the long axis radial and the other two with the long axes tangential in reference to the capsid sphere. T = 3 viruses display one or the other of these two orientations. The CPMV capsid was permeable to cesium ions, leading to a disturbance of the beta-annulus inside a channel-like structure, suggesting an ion channel. The hexagonal crystal form diffracted X rays to 3 A resolution, despite the large unit cell. The large ( approximately 200 A) solvent channels in the lattice allow exchange of CPMV cognate Fab fragments. As an initial step in the structure determination of the CPMV/Fab complex, the P6(1)22 crystal structure was solved by molecular replacement with the CPMV model determined in the cubic cell.


    Related Citations: 
    • The structure of cowpea mosaic virus at 3.5 A resolution
      Stauffacher, C.V.,Usha, R.,Harrington, M.,Schmidt, T.,Hosur, M.,Johnson, J.E.
      (1987) Crystallography in Molecular Biology --: 293


    Organizational Affiliation

    Department of Molecular Biology, MB-31, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California, 92037, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
COWPEA MOSAIC VIRUS, SMALL (S) SUBUNIT
1
189Cowpea mosaic virus (strain SB)
Find proteins for P03599 (Cowpea mosaic virus (strain SB))
Go to UniProtKB:  P03599
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
COWPEA MOSAIC VIRUS, LARGE (L) SUBUNIT
2
369Cowpea mosaic virus (strain SB)
Find proteins for P03599 (Cowpea mosaic virus (strain SB))
Go to UniProtKB:  P03599
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Work: 0.202 
  • Space Group: I 2 3
Unit Cell:
Length (Å)Angle (°)
a = 317.000α = 90.00
b = 317.000β = 90.00
c = 317.000γ = 90.00
Software Package:
Software NamePurpose
X-PLORrefinement
MGROSCdata reduction
MGROSCdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-03-18
    Type: Initial release
  • Version 1.1: 2008-04-29
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2014-04-09
    Type: Database references
  • Version 1.4: 2017-10-11
    Type: Refinement description