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 9B2X | pdb_00009b2x

Cryo-EM structure of Prefusion RSV F (RSV220975)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.28 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 9B2X

This is version 1.3 of the entry. See complete history. 

Literature

A foldon-free prefusion F trimer vaccine for respiratory syncytial virus to reduce off-target immune responses.

Bakkers, M.J.G., Cox, F., Koornneef, A., Yu, X., van Overveld, D., Le, L., van den Hoogen, W., Vaneman, J., Thoma, A., Voorzaat, R., Tettero, L., Juraszek, J., van der Fits, L., Zahn, R., Langedijk, J.P.M.

(2024) Nat Microbiol 9: 3254-3267

  • DOI: https://doi.org/10.1038/s41564-024-01860-1
  • Primary Citation Related Structures: 
    9B2X

  • PubMed Abstract: 

    Respiratory syncytial virus (RSV) is a major cause of severe respiratory disease in infants and older people. Current RSV subunit vaccines are based on a fusion protein that is stabilized in the prefusion conformation and linked to a heterologous foldon trimerization domain to obtain a prefusion F (preF) trimer. Here we show that current RSV vaccines induce undesirable anti-foldon antibodies in non-human primates, mice and humans. To overcome this, we designed a foldon-free RSV preF trimer by elucidating the structural basis of trimerization-induced preF destabilization through molecular dynamics simulations and by introducing amino acid substitutions that negate hotspots of charge repulsion. The highly stable prefusion conformation was validated using antigenic and cryo-electron microscopy analysis. The preF is immunogenic and protective in naive mouse models and boosts neutralizing antibody titres in RSV-pre-exposed mice and non-human primates, while achieving similar titres to approved RSV vaccines in mice. This stable preF design is a promising option as a foldon-independent candidate for a next-generation RSV vaccine immunogen.


  • Organizational Affiliation: 
    • Janssen Vaccines & Prevention BV, Leiden, The Netherlands.

Macromolecule Content 

  • Total Structure Weight: 176.23 kDa 
  • Atom Count: 10,860 
  • Modeled Residue Count: 1,386 
  • Deposited Residue Count: 1,572 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Fusion glycoprotein F0
A, B, C
524human respiratory syncytial virusMutation(s): 0 
Gene Names: F, MZ07_64039gpF, MZ07_64040gpF
UniProt
Find proteins for P03420 (Human respiratory syncytial virus A (strain A2))
Explore P03420 
Go to UniProtKB:  P03420
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP03420
Glycosylation
Glycosylation Sites: 2
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.28 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2024-10-16
    Type: Initial release
  • Version 1.1: 2024-11-06
    Changes: Data collection
  • Version 1.2: 2024-12-04
    Changes: Data collection, Database references
  • Version 1.3: 2024-12-11
    Changes: Data collection, Database references