8YE3 | pdb_00008ye3

Cryo-EM structure of human respiratory syncytial virus fusion protein variant

• PDB DOI: https://doi.org/10.2210/pdb8YE3/pdb
• EM Map EMD-39188: EMDB EMDataResource

• Classification: VIRAL PROTEIN
• Organism(s): human respiratory syncytial virus
• Expression System: Cricetulus griseus
• Mutation(s): No 


• Deposited: 2024-02-21 Released: 2024-10-02 
• Deposition Author(s): Li, Q.M., Su, J.G., Zhang, J., Liang, Y., Shao, S., Li, X.Y., Zhao, Z.X.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.40 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Mutating a flexible region of the RSV F protein can stabilize the prefusion conformation.

Liang, Y., Shao, S., Li, X.Y., Zhao, Z.X., Liu, N., Liu, Z.M., Shen, F.J., Zhang, H., Hou, J.W., Zhang, X.F., Jin, Y.Q., Du, L.F., Li, X., Zhang, J., Su, J.G., Li, Q.M.

(2024) Science 385: 1484-1491

• PubMed: 39325881 
• DOI: https://doi.org/10.1126/science.adp2362
• Primary Citation of Related Structures:  
  8YE3


• PubMed Abstract: 
  

  The respiratory syncytial virus (RSV) fusion (F) glycoprotein is highly immunogenic in its prefusion (pre-F) conformation. However, the protein is unstable, and its conformation must be stabilized for it to function effectively as an immunogen in vaccines. We present a mutagenesis strategy to arrest the RSV F protein in its pre-F state by blocking localized changes in protein structure that accompany large-scale conformational rearrangements. We generated a series of mutants and screened them in vitro to assess their potential for forming a stable pre-F. In animals, the immunogenicity of a representative mutant F protein, with a conformation confirmed by cryo-electron microscopy, elicited levels of neutralizing antibodies and protection against RSV-induced lung damage that were comparable to those of DS-Cav1, a pre-F used in a licensed vaccine.

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Organizational Affiliation: 
• The Sixth Laboratory, National Vaccine and Serum Institute (NVSI), Beijing 101111, China.
National Engineering Center for New Vaccine Research, Beijing 101111, China.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors and generated by (software)

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 164.4 kDa 
• Atom Count: 10,491 
• Modeled Residue Count: 1,356 
• Deposited Residue Count: 1,491 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fusion glycoprotein F0	A, B, C	497	human respiratory syncytial virus	Mutation(s): 0
UniProt
Find proteins for Q84850 (Human respiratory syncytial virus) Explore Q84850  Go to UniProtKB:  Q84850

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.40 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION	5.0
MODEL REFINEMENT	PHENIX	2.20

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-10-02 
Deposition Author(s): Li, Q.M., Su, J.G., Zhang, J., Liang, Y., Shao, S., Li, X.Y., Zhao, Z.X.

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Funding Organization	Location	Grant Number
Other government	China	--

Revision History  

• Version 1.0: 2024-10-02
  Type: Initial release
  
• Version 1.1: 2024-10-09
  Changes: Data collection, Database references, Structure summary
• Version 1.2: 2024-11-06
  Changes: Data collection