Structure of the Large Protease Resistant Upper Domain of VP5, the Major Capsid Protein of Herpes Simplex Virus-1

Experimental Data Snapshot

  • Resolution: 2.90 Å
  • R-Value Free: 0.289 
  • R-Value Work: 0.255 
  • R-Value Observed: 0.255 

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Structure of the herpesvirus major capsid protein

Bowman, B.R.Baker, M.L.Rixon, F.J.Chiu, W.Quiocho, F.A.

(2003) EMBO J 22: 757-765

  • DOI: https://doi.org/10.1093/emboj/cdg086
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    Herpes simplex virus-1 (HSV-1) virions are large, complex enveloped particles containing a proteinaceous tegument layer connected to an icosahedral capsid. The major capsid protein, VP5 (149 kDa), makes up both types of capsomere, pentons and hexons. Limited trypsin digestion of VP5 identified a single stable 65 kDa fragment which represents a proposed protein folding nucleus. We report the 2.9 A crystal structure of this fragment and its modeling into an 8.5 A resolution electron cryomicroscopy map of the HSV-1 capsid. The structure, the first for any capsid protein from Herpesviridae, revealed a novel fold, placing herpesviruses outside any of the structurally linked viral groupings. Alterations in the geometrical arrangements of the VP5 subunits in the capsomeres exposes different residues, resulting in the differential association of the tegument and VP26 with the pentons and hexons, respectively. The rearrangements of VP5 subunits required to form both pentavalent and hexavalent capsomeres result in structures that exhibit very different electrostatic properties. These differences may mediate the binding and release of other structural proteins during capsid maturation.

  • Organizational Affiliation

    Verna and Marrs McLean Department of Biochemistry and Molecular Biology, Graduate Program in Structural and Computational Biology, Baylor College of Medicine, Houston, TX 77030, USA.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Major capsid protein
A, B
604Human alphaherpesvirus 1Mutation(s): 0 
Gene Names: UL19
Find proteins for P06491 (Human herpesvirus 1 (strain 17))
Explore P06491 
Go to UniProtKB:  P06491
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP06491
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.90 Å
  • R-Value Free: 0.289 
  • R-Value Work: 0.255 
  • R-Value Observed: 0.255 
  • Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 99.072α = 90
b = 99.072β = 90
c = 454.684γ = 90
Software Package:
Software NamePurpose
HKL-2000data reduction
SCALEPACKdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2004-01-20
    Type: Initial release
  • Version 1.1: 2008-04-29
    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