6LGL

The atomic structure of varicella-zoster virus A-capsid


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Near-atomic cryo-electron microscopy structures of varicella-zoster virus capsids.

Wang, W.Zheng, Q.Pan, D.Yu, H.Fu, W.Liu, J.He, M.Zhu, R.Cai, Y.Huang, Y.Zha, Z.Chen, Z.Ye, X.Han, J.Que, Y.Wu, T.Zhang, J.Li, S.Zhu, H.Zhou, Z.H.Cheng, T.Xia, N.

(2020) Nat Microbiol 5: 1542-1552

  • DOI: https://doi.org/10.1038/s41564-020-0785-y
  • Primary Citation of Related Structures:  
    6LGL, 6LGN

  • PubMed Abstract: 

    Varicella-zoster virus (VZV) is a medically important human herpesvirus that causes chickenpox and shingles, but its cell-associated nature has hindered structure studies. Here we report the cryo-electron microscopy structures of purified VZV A-capsid and C-capsid, as well as of the DNA-containing capsid inside the virion. Atomic models derived from these structures show that, despite enclosing a genome that is substantially smaller than those of other human herpesviruses, VZV has a similarly sized capsid, consisting of 955 major capsid protein (MCP), 900 small capsid protein (SCP), 640 triplex dimer (Tri2) and 320 triplex monomer (Tri1) subunits. The VZV capsid has high thermal stability, although with relatively fewer intra- and inter-capsid protein interactions and less stably associated tegument proteins compared with other human herpesviruses. Analysis with antibodies targeting the N and C termini of the VZV SCP indicates that the hexon-capping SCP-the largest among human herpesviruses-uses its N-terminal half to bridge hexon MCP subunits and possesses a C-terminal flexible half emanating from the inner rim of the upper hexon channel into the tegument layer. Correlation of these structural features and functional observations provide insights into VZV assembly and pathogenesis and should help efforts to engineer gene delivery and anticancer vectors based on the currently available VZV vaccine.


  • Organizational Affiliation

    State Key Laboratory of Molecular Vaccinology and Molecular Diagnostics, National Institute of Diagnostics and Vaccine Development in Infectious Diseases, School of Life Sciences, School of Public Health, Xiamen University, Xiamen, China.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Major capsid protein1,396Human alphaherpesvirus 3Mutation(s): 0 
UniProt
Find proteins for Q6QCL5 (Human herpesvirus 3)
Explore Q6QCL5 
Go to UniProtKB:  Q6QCL5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6QCL5
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Small capsomere-interacting protein235Human alphaherpesvirus 3Mutation(s): 0 
UniProt
Find proteins for Q6QCN2 (Human herpesvirus 3)
Explore Q6QCN2 
Go to UniProtKB:  Q6QCN2
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UniProt GroupQ6QCN2
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Triplex capsid protein 1EA [auth e],
HA [auth f],
KA [auth g],
NA [auth h],
QA [auth i]
483Human alphaherpesvirus 3Mutation(s): 0 
UniProt
Find proteins for Q6QCN5 (Human herpesvirus 3)
Explore Q6QCN5 
Go to UniProtKB:  Q6QCN5
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Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6QCN5
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Triplex capsid protein 2316Human alphaherpesvirus 3Mutation(s): 0 
UniProt
Find proteins for Q6QCL4 (Human herpesvirus 3)
Explore Q6QCL4 
Go to UniProtKB:  Q6QCL4
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UniProt GroupQ6QCL4
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2020-07-29
    Type: Initial release
  • Version 1.1: 2021-08-11
    Changes: Database references