Structure of the L-A virus

Experimental Data Snapshot

  • Resolution: 3.50 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.266 

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L-A virus at 3.4 A resolution reveals particle architecture and mRNA decapping mechanism.

Naitow, H.Tang, J.Canady, M.Wickner, R.B.Johnson, J.E.

(2002) Nat Struct Biol 9: 725-728

  • DOI: https://doi.org/10.1038/nsb844
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    The structure of the yeast L-A virus was determined by X-ray crystallography at 3.4 A resolution. The L-A dsRNA virus is 400 A in diameter and contains a single protein shell of 60 asymmetric dimers of the coat protein, a feature common among the inner protein shells of dsRNA viruses and probably related to their unique mode of transcription and replication. The two identical subunits in each dimer are in non-equivalent environments and show substantially different conformations in specific surface regions. The L-A virus decaps cellular mRNA to efficiently translate its own uncapped mRNA. Our structure reveals a trench at the active site of the decapping reaction and suggests a role for nearby residues in the reaction.

  • Organizational Affiliation

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

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Major coat protein
A, B
680Saccharomyces cerevisiae virus L-AMutation(s): 0 
Find proteins for P32503 (Saccharomyces cerevisiae virus L-A)
Explore P32503 
Go to UniProtKB:  P32503
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP32503
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 3.50 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.266 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 407α = 90
b = 403.2β = 90.46
c = 572γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
X-PLORmodel building

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2002-10-02
    Type: Initial release
  • Version 1.1: 2008-04-28
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2024-02-14
    Changes: Data collection, Database references, Derived calculations