4NQX

Crystal Structure of HLA A*0101 in complex with NP44-S7N, an 9-mer influenza epitope


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.283 
  • R-Value Work: 0.270 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Preexisting CD8+ T-cell immunity to the H7N9 influenza A virus varies across ethnicities.

Quinones-Parra, S.Grant, E.Loh, L.Nguyen, T.H.Campbell, K.A.Tong, S.Y.Miller, A.Doherty, P.C.Vijaykrishna, D.Rossjohn, J.Gras, S.Kedzierska, K.

(2014) Proc.Natl.Acad.Sci.USA 111: 1049-1054

  • DOI: 10.1073/pnas.1322229111
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The absence of preexisting neutralizing antibodies specific for the novel A (H7N9) influenza virus indicates a lack of prior human exposure. As influenza A virus-specific CD8(+) T lymphocytes (CTLs) can be broadly cross-reactive, we tested whether im ...

    The absence of preexisting neutralizing antibodies specific for the novel A (H7N9) influenza virus indicates a lack of prior human exposure. As influenza A virus-specific CD8(+) T lymphocytes (CTLs) can be broadly cross-reactive, we tested whether immunogenic peptides derived from H7N9 might be recognized by memory CTLs established following infection with other influenza strains. Probing across multiple ethnicities, we identified 32 conserved epitopes derived from the nucleoprotein (NP) and matrix-1 (M1) proteins. These NP and M1 peptides are presented by HLAs prevalent in 16-57% of individuals. Remarkably, some HLA alleles (A*0201, A*0301, B*5701, B*1801, and B*0801) elicit robust CTL responses against any human influenza A virus, including H7N9, whereas ethnicities where HLA-A*0101, A*6801, B*1501, and A*2402 are prominent, show limited CTL response profiles. By this criterion, some groups, especially the Alaskan and Australian Indigenous peoples, would be particularly vulnerable to H7N9 infection. This dissection of CTL-mediated immunity to H7N9 thus suggests strategies for both vaccine delivery and development.


    Organizational Affiliation

    Department of Microbiology and Immunology, The University of Melbourne, at the Peter Doherty Institute for Infection and Immunity, Victoria, 3010, Australia.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
HLA class I histocompatibility antigen, A-1 alpha chain
A, C, E, G, I, K
284Homo sapiensMutation(s): 0 
Gene Names: HLA-A (HLAA)
Find proteins for P30443 (Homo sapiens)
Go to Gene View: HLA-A
Go to UniProtKB:  P30443
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Beta-2-microglobulin
B, D, F, H, J, L
100Homo sapiensMutation(s): 0 
Gene Names: B2M
Find proteins for P61769 (Homo sapiens)
Go to Gene View: B2M
Go to UniProtKB:  P61769
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
NP44-S7N mutant peptide, CTELKLNDY
M, N, O, P, Q, R
9Influenza A virus (strain A/China:Nanchang/11/1996 H1N1)Mutation(s): 0 
Gene Names: NP
Find proteins for Q07FI1 (Influenza A virus (strain A/China:Nanchang/11/1996 H1N1))
Go to UniProtKB:  Q07FI1
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.283 
  • R-Value Work: 0.270 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 264.610α = 90.00
b = 81.411β = 121.82
c = 140.290γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
PHASERphasing
Blu-Icedata collection
BUSTERrefinement
BUSTER-TNTrefinement
SCALAdata scaling
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2013-11-26 
  • Released Date: 2013-12-25 
  • Deposition Author(s): Rossjohn, J., Gras, S.

Revision History 

  • Version 1.0: 2013-12-25
    Type: Initial release
  • Version 1.1: 2014-02-05
    Type: Database references