7N2P

AS4.3-RNASEH2b-HLA*B27

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.230 
  • R-Value Observed: 0.235 

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This is version 1.3 of the entry. See complete history. 


Literature

Autoimmunity-associated T cell receptors recognize HLA-B*27-bound peptides.

Yang, X., Garner, L.I., Zvyagin, I.V., Paley, M.A., Komech, E.A., Jude, K.M., Zhao, X., Fernandes, R.A., Hassman, L.M., Paley, G.L., Savvides, C.S., Brackenridge, S., Quastel, M.N., Chudakov, D.M., Bowness, P., Yokoyama, W.M., McMichael, A.J., Gillespie, G.M., Garcia, K.C.

(2022) Nature 612: 771-777

  • DOI: https://doi.org/10.1038/s41586-022-05501-7
  • Primary Citation of Related Structures:  
    7N2N, 7N2O, 7N2P, 7N2Q, 7N2R, 7N2S, 8CX4

  • PubMed Abstract: 

    • Human leucocyte antigen B*27 (HLA-B*27) is strongly associated with inflammatory diseases of the spine and pelvis (for example, ankylosing spondylitis (AS)) and the eye (that is, acute anterior uveitis (AAU)) 1 . How HLA-B*27 facilitates disease remains unknown, but one possible mechanism could involve presentation of pathogenic peptides to CD8 + T cells ...

    Human leucocyte antigen B*27 (HLA-B*27) is strongly associated with inflammatory diseases of the spine and pelvis (for example, ankylosing spondylitis (AS)) and the eye (that is, acute anterior uveitis (AAU)) 1 . How HLA-B*27 facilitates disease remains unknown, but one possible mechanism could involve presentation of pathogenic peptides to CD8 + T cells. Here we isolated orphan T cell receptors (TCRs) expressing a disease-associated public β-chain variable region-complementary-determining region 3β (BV9-CDR3β) motif 2-4 from blood and synovial fluid T cells from individuals with AS and from the eye in individuals with AAU. These TCRs showed consistent α-chain variable region (AV21) chain pairing and were clonally expanded in the joint and eye. We used HLA-B*27:05 yeast display peptide libraries to identify shared self-peptides and microbial peptides that activated the AS- and AAU-derived TCRs. Structural analysis revealed that TCR cross-reactivity for peptide-MHC was rooted in a shared binding motif present in both self-antigens and microbial antigens that engages the BV9-CDR3β TCRs. These findings support the hypothesis that microbial antigens and self-antigens could play a pathogenic role in HLA-B*27-associated disease.

    Organizational Affiliation: 

    Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA, USA. kcgarcia@stanford.edu.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Human leukocyte antigen (HLA) B27278Homo sapiensMutation(s): 1 
Gene Names: HLA-B
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Beta-2-microglobulin100Homo sapiensMutation(s): 0 
Gene Names: B2M, CDABP0092, HDCMA22P
UniProt & NIH Common Fund Data Resources
Find proteins for P61769 (Homo sapiens)
Explore P61769 
Go to UniProtKB:  P61769
PHAROS:  P61769
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UniProt GroupP61769
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Ribonuclease H2 subunit B9Homo sapiensMutation(s): 0 
Gene Names: RNASEH2B
UniProt
Find proteins for A0A2R8Y7R8 (Homo sapiens)
Explore A0A2R8Y7R8 
Go to UniProtKB:  A0A2R8Y7R8
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UniProt GroupA0A2R8Y7R8
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
AS4.3 T cell receptor alpha chain204Homo sapiensMutation(s): 0 
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
AS4.3 T cell receptor beta chainE [auth F]242Homo sapiensMutation(s): 0 
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Experimental Data & Validation

Experimental Data

Unit Cell:
Length ( Å )Angle ( ˚ )
a = 54.925α = 90
b = 93.992β = 90
c = 177.774γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United States5R01AI103867

Revision History  (Full details and data files)

  • Version 1.0: 2022-12-07
    Type: Initial release
  • Version 1.1: 2022-12-21
    Changes: Database references
  • Version 1.2: 2023-01-04
    Changes: Database references
  • Version 1.3: 2023-02-15
    Changes: Data collection