1SYV

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


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 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
  • Structures With Same Primary Citation

  • 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: 3
MoleculeChainsSequence LengthOrganismDetails
major histocompatibility complex, class II, DR alphaC9N/AMutation(s): 0 
Find proteins for Q9TQB0 (Homo sapiens)
Explore Q9TQB0 
Go to UniProtKB:  Q9TQB0
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  • Reference Sequence

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
MHC class I antigenA276Homo sapiensMutation(s): 0 
Gene Names: HLA-BHLAB
Find proteins for P01889 (Homo sapiens)
Explore P01889 
Go to UniProtKB:  P01889
NIH Common Fund Data Resources
PHAROS  P01889
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  • Reference Sequence

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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Beta-2-microglobulinB100Homo sapiensMutation(s): 0 
Gene Names: B2MCDABP0092HDCMA22P
Find proteins for P61769 (Homo sapiens)
Explore P61769 
Go to UniProtKB:  P61769
NIH Common Fund Data Resources
PHAROS  P61769
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 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
b = 82.226β = 90
c = 110.002γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
CNSrefinement
HKL-2000data reduction

Structure Validation

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Entry History 

Revision History 

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