The impact of HLA-B micropolymorphism outside primary peptide anchor pockets on the CTL response to CMV
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Updated: Jul 16, 2026

Use of Single Chain MHC Technology to Investigate Co-agonism in Human CD8+ T Cell Activation
Published on: February 28, 2019
Jacqueline M Burrows1, Katherine K Wynn, Fleur E Tynan
1Division of Infectious Diseases and Immunology, Queensland Institute of Medical Research, Brisbane, Australia. scott.burrows@qimr.edu.au
Abstract:
The factors controlling epitope selection in the T cell response to persistent viruses are not fully understood, and we have examined this issue in the context of four HLA-B*35-binding peptides from the pp65 antigen of human cytomegalovirus, two of which are previously undescribed. Striking differences in the hierarchy of immunodominance between these four epitopes were observed in healthy virus carriers expressing HLA-B*3501 versus B*3508, two HLA-B allotypes that differ by a single amino acid at position 156 (HLA-B*3501, (156)Leucine; HLA-B*3508, (156)Arginine) that projects from the alpha2 helix into the centre of the peptide-binding groove. While HLA-B*3501(+) individuals responded most strongly to the (123)IPSINVHHY(131) and (366)HPTFTSQY(373) epitopes, HLA-B*3508(+) individuals responded preferentially to (103)CPSQEPMSIYVY(114) and (188)FPTKDVAL(195). By comparing peptide-MHC association and disassociation rates with peptide immunogenicity, it was clear that dissociation rates correlate more closely with the hierarchy of immunodominance among the four pp65 peptides. These findings demonstrate that MHC micropolymorphism at positions outside the primary anchor residue binding pockets can have a major impact on determinant selection in antiviral T cell responses. Such influences may provide the evolutionary pressure that maintains closely related MHC molecules in diverse human populations.
Insights
Human cytomegalovirus (CMV) epitope selection is influenced by subtle differences in human leukocyte antigen (HLA) molecules. Minor changes in HLA-B allotypes significantly alter T cell responses to CMV pp65 peptides.
Area of Science:
- Immunology
- Virology
- Genetics
Background:
- Epitope selection in T cell responses to persistent viruses like human cytomegalovirus (CMV) is not fully understood.
- Human leukocyte antigen (HLA) class I molecules present viral peptides to T cells, influencing immune responses.
Purpose of the Study:
- To investigate the factors controlling epitope selection in the T cell response to CMV.
- To examine the impact of HLA-B allotype variation on the immunodominance hierarchy of CMV pp65 epitopes.
Main Methods:
- Analysis of T cell responses to four HLA-B*35-binding peptides from the CMV pp65 antigen in healthy individuals.
- Comparison of peptide-MHC (major histocompatibility complex) association and dissociation rates with peptide immunogenicity.
- Genotyping of HLA-B*3501 and HLA-B*3508 allotypes.
Main Results:
- Significant differences in epitope immunodominance hierarchy were observed between HLA-B*3501 and HLA-B*3508 allotype carriers.
- HLA-B*3501(+) individuals responded strongly to specific pp65 epitopes, while HLA-B*3508(+) individuals preferred different epitopes.
- Peptide dissociation rates from MHC molecules correlated more closely with the observed immunodominance hierarchy.
Conclusions:
- Micropolymorphism in HLA molecules, even at positions outside primary binding pockets, critically affects T cell determinant selection in antiviral responses.
- These findings highlight the role of HLA diversity in shaping immune responses to persistent viral infections and may explain the maintenance of related HLA molecules in human populations.
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