4WHT

Structure of the Hepatitis C virus envelope glycoprotein E2 antigenic region 412-423 bound to the broadly neutralizing antibody 3/11, P1 crystal form


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.22 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.209 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural flexibility of a conserved antigenic region in hepatitis C virus glycoprotein e2 recognized by broadly neutralizing antibodies.

Meola, A.Tarr, A.W.England, P.Meredith, L.W.McClure, C.P.Foung, S.K.McKeating, J.A.Ball, J.K.Rey, F.A.Krey, T.

(2015) J.Virol. 89: 2170-2181

  • DOI: 10.1128/JVI.02190-14
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Neutralizing antibodies (NAbs) targeting glycoprotein E2 are important for the control of hepatitis C virus (HCV) infection. One conserved antigenic site (amino acids 412 to 423) is disordered in the reported E2 structure, but a synthetic peptide mim ...

    Neutralizing antibodies (NAbs) targeting glycoprotein E2 are important for the control of hepatitis C virus (HCV) infection. One conserved antigenic site (amino acids 412 to 423) is disordered in the reported E2 structure, but a synthetic peptide mimicking this site forms a β-hairpin in complex with three independent NAbs. Our structure of the same peptide in complex with NAb 3/11 demonstrates a strikingly different extended conformation. We also show that residues 412 to 423 are essential for virus entry but not for E2 folding. Together with the neutralizing capacity of the 3/11 Fab fragment, this indicates an unexpected structural flexibility within this epitope. NAbs 3/11 and AP33 (recognizing the extended and β-hairpin conformations, respectively) display similar neutralizing activities despite converse binding kinetics. Our results suggest that HCV utilizes conformational flexibility as an immune evasion strategy, contributing to the limited immunogenicity of this epitope in patients, similar to the conformational flexibility described for other enveloped and nonenveloped viruses.


    Organizational Affiliation

    School of Life Sciences, University of Nottingham, Queen's Medical Centre, Nottingham, United Kingdom Biomedical Research Unit in Gastrointestinal and Liver Diseases, University of Nottingham, Queen's Medical Centre, Nottingham, United Kingdom.,Hepatitis C Research Group, Centre for Human Virology, University of Birmingham, Birmingham, United Kingdom.,Department of Pathology, Stanford University School of Medicine, Stanford, California, USA.,Institut Pasteur, Unité de Virologie Structurale, Department Virologie, Paris, France CNRS UMR 3569, Paris, France tkrey@pasteur.fr.,Institut Pasteur, Unité de Virologie Structurale, Department Virologie, Paris, France CNRS UMR 3569, Paris, France.,Institut Pasteur, Plate-Forme de Biophysique des Macromolécules et de Leurs Interactions, Paris, France CNRS UMR 3528, Paris, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Heavy chain of the Fab fragment derived from neutralizing antibody 3/11
A, C, E, G, I, K, M, O, Q, S, U, X
252N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Light chain of the Fab fragment derived from neutralizing antibody 3/11
J, B, D, F, H, L, N, P, R, T, V, Y
220N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Epitope peptide
a, c, e, g, i, k, m, o, q, s, u, x
12Hepacivirus CMutation(s): 0 
Find proteins for Q9WJJ4 (Hepacivirus C)
Go to UniProtKB:  Q9WJJ4
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.22 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.209 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 64.794α = 88.79
b = 128.225β = 94.36
c = 163.626γ = 96.15
Software Package:
Software NamePurpose
PHASERphasing
XSCALEdata scaling
XSCALEdata reduction
BUSTERrefinement
XDSdata reduction
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2014-09-23 
  • Released Date: 2014-12-17 
  • Deposition Author(s): Krey, T., Rey, F.A.

Funding OrganizationLocationGrant Number
ANRSFrance--

Revision History 

  • Version 1.0: 2014-12-17
    Type: Initial release
  • Version 1.1: 2015-02-04
    Type: Database references