6Q0S

Crystal Structure of RSV strain B18537 Prefusion-stabilized glycoprotein F Variant DS-Cav1

• PDB DOI: https://doi.org/10.2210/pdb6Q0S/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Human respiratory syncytial virus (subgroup B / strain 18537)
• Expression System: Homo sapiens
• Mutation(s): Yes 


• Deposited: 2019-08-02 Released: 2020-01-22 
• Deposition Author(s): Joyce, M.G., Bao, A., Kwong, P.D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.94 Å
• R-Value Free: 0.212 
• R-Value Work: 0.187 
• R-Value Observed: 0.189 

Literature

Crystal Structure and Immunogenicity of the DS-Cav1-Stabilized Fusion Glycoprotein From Respiratory Syncytial Virus Subtype B.

Joyce, M.G., Bao, A., Chen, M., Georgiev, I.S., Ou, L., Bylund, T., Druz, A., Kong, W.P., Peng, D., Rundlet, E.J., Van Galen, J.G., Wang, S., Yang, Y., Zhang, B., Chuang, G.Y., McLellan, J.S., Graham, B.S., Mascola, J.R., Kwong, P.D.

(2019) Pathog Immun 4: 294-323

• PubMed: 31893251 
• DOI: https://doi.org/10.20411/pai.v4i2.338
• Primary Citation of Related Structures:  
  6Q0S


• PubMed Abstract: 
  

  Respiratory syncytial virus (RSV) subtypes, A and B, co-circulate in annual epidemics and alternate in dominance. We have shown that a subtype A RSV fusion (F) glycoprotein, stabilized in its prefusion conformation by DS-Cav1 mutations, is a promising RSV-vaccine immunogen, capable of boosting RSV-neutralizing titers in healthy adults. In both humans and vaccine-tested animals, neutralizing titers elicited by this subtype A DS-Cav1 immunogen were ~ 2- to 3-fold higher against the homologous subtype A virus than against the heterologous subtype B virus.

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Organizational Affiliation: 

Vaccine Research Center, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland.

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 PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 62.04 kDa 
• Atom Count: 3,852 
• Modelled Residue Count: 454 
• Deposited Residue Count: 550 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fusion glycoprotein F0	A [auth F]	550	Human respiratory syncytial virus (subgroup B / strain 18537)	Mutation(s): 4
UniProt
Find proteins for P13843 (Human respiratory syncytial virus B (strain 18537)) Explore P13843  Go to UniProtKB:  P13843

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	B [auth F], C [auth F]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
SO4	D [auth F], E [auth F], F	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.94 Å
• R-Value Free: 0.212 
• R-Value Work: 0.187 
• R-Value Observed: 0.189 
• Space Group: P 4₁ 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 167.874	α = 90
b = 167.874	β = 90
c = 167.874	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

Currently 6Q0S does not have a validation slider image.

Entry History 

Deposition Data

• Released Date: 2020-01-22 
Deposition Author(s): Joyce, M.G., Bao, A., Kwong, P.D.

Revision History  

• Version 1.0: 2020-01-22
  Type: Initial release
  
• Version 1.1: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary
• Version 1.2: 2023-10-11
  Changes: Data collection, Database references, Refinement description, Structure summary