7BW6

Varicella-zoster virus capsid


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.70 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

Cryo-EM structure of the varicella-zoster virus A-capsid.

Sun, J.Liu, C.Peng, R.Zhang, F.K.Tong, Z.Liu, S.Shi, Y.Zhao, Z.Zeng, W.B.Gao, G.F.Shen, H.J.Yang, X.Luo, M.Qi, J.Wang, P.

(2020) Nat Commun 11: 4795-4795

  • DOI: https://doi.org/10.1038/s41467-020-18537-y
  • Primary Citation of Related Structures:  
    7BW6

  • PubMed Abstract: 

    Varicella-zoster virus (VZV), a member of the Alphaherpesvirinae subfamily, causes severe diseases in humans of all ages. The viral capsids play critical roles in herpesvirus infection, making them potential antiviral targets. Here, we present the 3.7-Å-resolution structure of the VZV A-capsid and define the molecular determinants underpinning the assembly of this complicated viral machinery. Overall, the VZV capsid has a similar architecture to that of other known herpesviruses. The major capsid protein (MCP) assembles into pentons and hexons, forming extensive intra- and inter-capsomer interaction networks that are further secured by the small capsid protein (SCP) and the heterotriplex. The structure reveals a pocket beneath the floor of MCP that could potentially be targeted by antiviral inhibitors. In addition, we identified two alphaherpesvirus-specific structural features in SCP and Tri1 proteins. These observations highlight the divergence of different herpesviruses and provide an important basis for developing antiviral drugs.


  • Organizational Affiliation

    Shanxi Academy of Advanced Research and Innovation, Taiyuan, 030032, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
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
Entity Groups  
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UniProt GroupQ6QCN2
Sequence Annotations
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  • Reference Sequence
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Entity ID: 3
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
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6QCL4
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Triplex capsid protein 1HA [auth i],
KA [auth l],
NA [auth o],
QA [auth r],
TA [auth w]
483Human alphaherpesvirus 3Mutation(s): 0 
UniProt
Find proteins for Q6QCN5 (Human herpesvirus 3)
Explore Q6QCN5 
Go to UniProtKB:  Q6QCN5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6QCN5
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.17
MODEL REFINEMENTCoot0.8.9.2
RECONSTRUCTIONRELION3.0.8

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China81673358

Revision History  (Full details and data files)

  • Version 1.0: 2020-09-23
    Type: Initial release
  • Version 1.1: 2020-10-07
    Changes: Database references