Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Dihedral - D3  (3D View)
Global Stoichiometry: Homo 6-mer - A6 

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

Macromolecule Content

• Total Structure Weight: 55.71 kDa 
• Atom Count: 3698 
• Residue Count: 492 
• Unique protein chains: 1

5C69

Crystal Structure of Prefusion-stabilized RSV F variant PR-DM

• DOI: 10.2210/pdb5C69/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Human respiratory syncytial virus A2, Enterobacteria phage Ox2
• Expression System: Homo sapiens
• Mutation(s): Yes 


• Deposited: 2015-06-22 Released: 2015-09-23 
• Deposition Author(s): McLellan, J.S., Langedijk, J.P.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.217 
• R-Value Work: 0.180 
• R-Value Observed: 0.182 

Literature

A highly stable prefusion RSV F vaccine derived from structural analysis of the fusion mechanism.

Krarup, A., Truan, D., Furmanova-Hollenstein, P., Bogaert, L., Bouchier, P., Bisschop, I.J., Widjojoatmodjo, M.N., Zahn, R., Schuitemaker, H., McLellan, J.S., Langedijk, J.P.

(2015) Nat Commun 6: 8143-8143

• PubMed: 26333350 
• DOI: 10.1038/ncomms9143
• Primary Citation of Related Structures:  
  5C6B, 5C69


• PubMed Abstract: 
  

Respiratory syncytial virus (RSV) causes acute lower respiratory tract infections and is the leading cause of infant hospitalizations. Recently, a promising vaccine antigen based on the RSV fusion protein (RSV F) stabilized in the native prefusion conformation has been described. Here we report alternative strategies to arrest RSV F in the prefusion conformation based on the prevention of hinge movements in the first refolding region and the elimination of proteolytic exposure of the fusion peptide. A limited number of unique mutations are identified that stabilize the prefusion conformation of RSV F and dramatically increase expression levels. This highly stable prefusion RSV F elicits neutralizing antibodies in cotton rats and induces complete protection against viral challenge. Moreover, the structural and biochemical analysis of the prefusion variants suggests a function for p27, the excised segment that precedes the fusion peptide in the polypeptide chain.

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Organizational Affiliation: 

Janssen Infectious Diseases and Vaccines, Archimedesweg 4-6, Leiden 2333 CN, The Netherlands.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fusion glycoprotein F0,Fibritin	A	492	Human respiratory syncytial virus A2, Enterobacteria phage Ox2 This entity is chimeric	Mutation(s): 4  Gene Names: F
Find proteins for Q38650 (Enterobacteria phage Ox2) Explore Q38650  Go to UniProtKB:  Q38650
Find proteins for P03420 (Human respiratory syncytial virus A (strain A2)) Explore P03420  Go to UniProtKB:  P03420

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NHE	A	2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID C8 H17 N O3 S MKWKNSIESPFAQN-UHFFFAOYSA-N
SO4	A	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
CL	A	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.217 
• R-Value Work: 0.180 
• R-Value Observed: 0.182 
• Space Group: P 4₁ 3 2
• Diffraction Data DOI: 10.15785/SBGRID/191 SBGrid

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 167.82	α = 90
b = 167.82	β = 90
c = 167.82	γ = 90

Software Package:

Software Name	Purpose
Aimless	data scaling
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
Coot	model building
iMOSFLM	data reduction

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2015-06-22 
• Released Date: 2015-09-23 
Deposition Author(s): McLellan, J.S., Langedijk, J.P.M.

Revision History 

• Version 1.0: 2015-09-23
  Type: Initial release