7K25

Murine polyomavirus hexavalent capsomer, subparticle reconstruction

  • Classification: VIRAL PROTEIN
  • Organism(s): Alphapolyomavirus muris
  • Expression System: Mus musculoides
  • Mutation(s): No 

  • Deposited: 2020-09-08 Released: 2020-10-07 
  • Deposition Author(s): Goetschius, D.J., Hafenstein, S.L.
  • Funding Organization(s): National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS), National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID), National Institutes of Health/National Cancer Institute (NIH/NCI)

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Models: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Antibody escape by polyomavirus capsid mutation facilitates neurovirulence.

Lauver, M.D.Goetschius, D.J.Netherby-Winslow, C.S.Ayers, K.N.Jin, G.Haas, D.G.Frost, E.L.Cho, S.H.Bator, C.Bywaters, S.M.Christensen, N.D.Hafenstein, S.L.Lukacher, A.E.

(2020) Elife 9

  • DOI: https://doi.org/10.7554/eLife.61056
  • Primary Citation of Related Structures:  
    7K22, 7K23, 7K24, 7K25

  • PubMed Abstract: 

    JCPyV polyomavirus, a member of the human virome, causes progressive multifocal leukoencephalopathy (PML), an oft-fatal demyelinating brain disease in individuals receiving immunomodulatory therapies. Mutations in the major viral capsid protein, VP1, are common in JCPyV from PML patients (JCPyV-PML) but whether they confer neurovirulence or escape from virus-neutralizing antibody (nAb) in vivo is unknown. A mouse polyomavirus (MuPyV) with a sequence-equivalent JCPyV-PML VP1 mutation replicated poorly in the kidney, a major reservoir for JCPyV persistence, but retained the CNS infectivity, cell tropism, and neuropathology of the parental virus. This mutation rendered MuPyV resistant to a monoclonal Ab (mAb), whose specificity overlapped the endogenous anti-VP1 response. Using cryo-EM and a custom sub-particle refinement approach, we resolved an MuPyV:Fab complex map to 3.2 Å resolution. The structure revealed the mechanism of mAb evasion. Our findings demonstrate convergence between nAb evasion and CNS neurovirulence in vivo by a frequent JCPyV-PML VP1 mutation.


  • Organizational Affiliation

    Department of Microbiology and Immunology, Penn State College of Medicine, Hershey, United States.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Capsid protein VP1
A, B, C, D, E
383Alphapolyomavirus murisMutation(s): 0 
UniProt
Find proteins for P49302 (Murine polyomavirus (strain P16 small-plaque))
Explore P49302 
Go to UniProtKB:  P49302
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP49302
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTCoot
MODEL REFINEMENTPHENIX
RECONSTRUCTIONRELION3.1

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)United StatesR01NS088367
National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)United StatesR01NS092662
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesR01AI107121
National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)United StatesF32NS106730
National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)United StatesF31NS083336
National Institutes of Health/National Cancer Institute (NIH/NCI)United StatesT32CA060395

Revision History  (Full details and data files)

  • Version 1.0: 2020-10-07
    Type: Initial release
  • Version 1.1: 2024-10-30
    Changes: Data collection, Database references, Refinement description, Structure summary