8AYY

Poliovirus type 3 (strain Saukett) stabilised virus-like particle (PV3 SC8) in complex with GSH and Pleconaril


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

A conserved glutathione binding site in poliovirus is a target for antivirals and vaccine stabilisation.

Bahar, M.W.Nasta, V.Fox, H.Sherry, L.Grehan, K.Porta, C.Macadam, A.J.Stonehouse, N.J.Rowlands, D.J.Fry, E.E.Stuart, D.I.

(2022) Commun Biol 5: 1293-1293

  • DOI: https://doi.org/10.1038/s42003-022-04252-5
  • Primary Citation of Related Structures:  
    8AYX, 8AYY, 8AYZ

  • PubMed Abstract: 

    Strategies to prevent the recurrence of poliovirus (PV) after eradication may utilise non-infectious, recombinant virus-like particle (VLP) vaccines. Despite clear advantages over inactivated or attenuated virus vaccines, instability of VLPs can compromise their immunogenicity. Glutathione (GSH), an important cellular reducing agent, is a crucial co-factor for the morphogenesis of enteroviruses, including PV. We report cryo-EM structures of GSH bound to PV serotype 3 VLPs showing that it can enhance particle stability. GSH binds the positively charged pocket at the interprotomer interface shown recently to bind GSH in enterovirus F3 and putative antiviral benzene sulphonamide compounds in other enteroviruses. We show, using high-resolution cryo-EM, the binding of a benzene sulphonamide compound with a PV serotype 2 VLP, consistent with antiviral activity through over-stabilizing the interprotomer pocket, preventing the capsid rearrangements necessary for viral infection. Collectively, these results suggest GSH or an analogous tight-binding antiviral offers the potential for stabilizing VLP vaccines.


  • Organizational Affiliation

    Division of Structural Biology, University of Oxford, The Henry Wellcome Building for Genomic Medicine, Headington, Oxford, OX3 7BN, UK. mohammad.bahar@strubi.ox.ac.uk.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Capsid protein, VP1300Poliovirus 3Mutation(s): 2 
UniProt
Find proteins for Q84895 (Poliovirus 3)
Explore Q84895 
Go to UniProtKB:  Q84895
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ84895
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Capsid protein, VP0340Poliovirus 3Mutation(s): 4 
UniProt
Find proteins for Q84895 (Poliovirus 3)
Explore Q84895 
Go to UniProtKB:  Q84895
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ84895
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Capsid protein, VP3238Poliovirus 3Mutation(s): 2 
UniProt
Find proteins for Q84895 (Poliovirus 3)
Explore Q84895 
Go to UniProtKB:  Q84895
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ84895
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
W11 (Subject of Investigation/LOI)
Query on W11

Download Ideal Coordinates CCD File 
D [auth A]3-{3,5-DIMETHYL-4-[3-(3-METHYL-ISOXAZOL-5-YL)-PROPOXY]-PHENYL}-5-TRIFLUOROMETHYL-[1,2,4]OXADIAZOLE
C18 H18 F3 N3 O3
KQOXLKOJHVFTRN-UHFFFAOYSA-N
GSH (Subject of Investigation/LOI)
Query on GSH

Download Ideal Coordinates CCD File 
E [auth C]GLUTATHIONE
C10 H17 N3 O6 S
RWSXRVCMGQZWBV-WDSKDSINSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION3.1.1
MODEL REFINEMENTPHENIX1.19.2-4158-000

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Bill & Melinda Gates FoundationUnited StatesRG.IMCB.I8-TSA-083

Revision History  (Full details and data files)

  • Version 1.0: 2022-12-07
    Type: Initial release