5JDB

Binding specificity of P[8] VP8* proteins of rotavirus vaccine strains with histo-blood group antigens


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 0.230 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.204 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Binding specificity of P[8] VP8* proteins of rotavirus vaccine strains with histo-blood group antigens.

Sun, X.Guo, N.Li, D.Jin, M.Zhou, Y.Xie, G.Pang, L.Zhang, Q.Cao, Y.Duan, Z.J.

(2016) Virology 495: 129-135

  • DOI: 10.1016/j.virol.2016.05.010
  • Primary Citation of Related Structures:  
    5JDB

  • PubMed Abstract: 
  • RotaTeq(®) and Rotarix™ are two common human rotavirus (RV) vaccines currently on the market worldwide. Recent studies indicate histo-blood group antigens (HBGAs) may be attachment factors for RVs. The P[8] VP8* proteins of RotaTeq and Rotarix were e ...

    RotaTeq(®) and Rotarix™ are two common human rotavirus (RV) vaccines currently on the market worldwide. Recent studies indicate histo-blood group antigens (HBGAs) may be attachment factors for RVs. The P[8] VP8* proteins of RotaTeq and Rotarix were expressed and purified, and their binding specificities were evaluated. Saliva-based binding assays showed that the VP8* proteins bound to the saliva samples of secretors irrespective of ABO blood types. However, in the oligosaccharide binding assay, the VP8* proteins displayed no specific binding to the HBGAs tested, including Lewis b and H1. The structure of RotaTeq P[8] VP8* was solved at 1.9Å. Structural comparisons revealed that the putative receptor binding site was different to that of other genotypes and displayed a novel potential binding region. These findings indicate RotaTeq and Rotarix may have better efficiency in areas with a high percentage of secretors.


    Organizational Affiliation

    Key Laboratory of Medical Virology and Viral Diseases, Ministry of Health of the People's Republic of China, Beijing 102206, China; National Institute for Viral Disease Control and Prevention, China CDC, Beijing 102206, China. Electronic address: zhaojund@126.com.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Outer capsid protein VP4ABCDEF160Rotavirus AMutation(s): 0 
Find proteins for E2EA82 (Rotavirus A)
Explore E2EA82 
Go to UniProtKB:  E2EA82
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 0.230 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.204 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 66.428α = 90
b = 114.931β = 96.05
c = 73.581γ = 90
Software Package:
Software NamePurpose
HKL-2000data scaling
PHENIXrefinement
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science FoundationChina31500139
National Natural Science FoundationChina81472003

Revision History 

  • Version 1.0: 2016-07-13
    Type: Initial release
  • Version 1.1: 2017-10-04
    Changes: Data collection, Database references, Derived calculations