1F2N

RICE YELLOW MOTTLE VIRUS


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.219 
  • R-Value Work: 0.218 
  • R-Value Observed: 0.227 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

3D domain swapping modulates the stability of members of an icosahedral virus group.

Qu, C.Liljas, L.Opalka, N.Brugidou, C.Yeager, M.Beachy, R.N.Fauquet, C.M.Johnson, J.E.Lin, T.

(2000) Structure 8: 1095-1103

  • DOI: 10.1016/s0969-2126(00)00508-6
  • Primary Citation of Related Structures:  
    1F2N

  • PubMed Abstract: 
  • Rice yellow mottle virus (RYMV) is a major pathogen that dramatically reduces rice production in many African countries. RYMV belongs to the genus sobemovirus, one group of plant viruses with icosahedral capsids and single-stranded, positive-sense RNA genomes ...

    Rice yellow mottle virus (RYMV) is a major pathogen that dramatically reduces rice production in many African countries. RYMV belongs to the genus sobemovirus, one group of plant viruses with icosahedral capsids and single-stranded, positive-sense RNA genomes.


    Related Citations: 
    • NUCLEOTIDE SEQUENCE AND GENOME CHARACTERIZATION OF RICE YELLOW MOTTLE VIRUS RNA
      YASSI, M.N., RITZENTHALER, C., BRUGIDOU, C., FAUQUET, C., BEACHY, R.N.
      (1994) J Gen Virol 75: 249

    Organizational Affiliation

    Department of Molecular Biology The Scripps Research Institute 10550 North Torrey Pines Road, La Jolla, CA 92037, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
CAPSID PROTEINA, B, C238Rice yellow mottle virusMutation(s): 0 
Find proteins for Q86527 (Rice yellow mottle virus)
Explore Q86527 
Go to UniProtKB:  Q86527
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CA
Query on CA

Download Ideal Coordinates CCD File 
D [auth A], E [auth B], F [auth C]CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.219 
  • R-Value Work: 0.218 
  • R-Value Observed: 0.227 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 283.5α = 90
b = 401.8β = 89.4
c = 284γ = 90
Software Package:
Software NamePurpose
GLRFphasing
X-PLORrefinement
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2000-11-01
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance