1SYV

HLA-B*4405 complexed to the dominant self ligand EEFGRAYGF


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.199 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Natural HLA class I polymorphism controls the pathway of antigen presentation and susceptibility to viral evasion

Zernich, D.Purcell, A.W.Macdonald, W.A.Kjer-Nielsen, L.Ely, L.K.Laham, N.Crockford, T.Mifsud, N.A.Bharadwaj, M.Chang, L.Tait, B.D.Holdsworth, R.Brooks, A.G.Bottomley, S.P.Beddoe, T.Peh, C.A.Rossjohn, J.McCluskey, J.

(2004) J.Exp.Med. 200: 13-24

  • DOI: 10.1084/jem.20031680
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • HLA class I polymorphism creates diversity in epitope specificity and T cell repertoire. We show that HLA polymorphism also controls the choice of Ag presentation pathway. A single amino acid polymorphism that distinguishes HLA-B*4402 (Asp116) from B ...

    HLA class I polymorphism creates diversity in epitope specificity and T cell repertoire. We show that HLA polymorphism also controls the choice of Ag presentation pathway. A single amino acid polymorphism that distinguishes HLA-B*4402 (Asp116) from B*4405 (Tyr116) permits B*4405 to constitutively acquire peptides without any detectable incorporation into the transporter associated with Ag presentation (TAP)-associated peptide loading complex even under conditions of extreme peptide starvation. This mode of peptide capture is less susceptible to viral interference than the conventional loading pathway used by HLA-B*4402 that involves assembly of class I molecules within the peptide loading complex. Thus, B*4402 and B*4405 are at opposite extremes of a natural spectrum in HLA class I dependence on the PLC for Ag presentation. These findings unveil a new layer of MHC polymorphism that affects the generic pathway of Ag loading, revealing an unsuspected evolutionary trade-off in selection for optimal HLA class I loading versus effective pathogen evasion.


    Organizational Affiliation

    Department of Microbiology and Immunology, The University of Melbourne, Parkville, Victoria 3010, Australia.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
MHC class I antigen
A
276Homo sapiensMutation(s): 0 
Gene Names: HLA-B (HLAB)
Find proteins for P30481 (Homo sapiens)
Go to Gene View: HLA-B
Go to UniProtKB:  P30481
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Beta-2-microglobulin
B
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
major histocompatibility complex, class II, DR alpha
C
9Homo sapiensMutation(s): 0 
Gene Names: HLA-DPA1
Find proteins for Q9TQB0 (Homo sapiens)
Go to Gene View: HLA-DPA1
Go to UniProtKB:  Q9TQB0
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.199 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 50.767α = 90.00
b = 82.226β = 90.00
c = 110.002γ = 90.00
Software Package:
Software NamePurpose
CNSrefinement
HKL-2000data reduction
HKL-2000data collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Revision History 

  • Version 1.0: 2004-10-19
    Type: Initial release
  • Version 1.1: 2008-04-30
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance