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Amino Acids. 2010 Jun;39(1):243-55. doi: 10.1007/s00726-009-0434-5. Epub 2009 Dec 9.

Generation of in silico predicted coxsackievirus B3-derived MHC class I epitopes by proteasomes.

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  • 1Clinic for Cardiology and Angiology, Charité-Universitätsmedizin Berlin, Campus Mitte, 10117, Berlin, Germany.

Abstract

Proteasomes are known to be the main suppliers of MHC class I (MHC-I) ligands. In an attempt to identify coxsackievirus B3 (CVB3)-MHC-I epitopes, a combined approach of in silico MHC-I/transporters associated with antigen processing (TAP)-binding and proteasomal cleavage prediction was applied. Accordingly, 13 potential epitopes originating from the structural and non-structural protein region of CVB3 were selected for further in vitro processing analysis by proteasomes. Mass spectrometry demonstrated the generation of seven of the 13 predicted MHC-I ligands or respective ligand precursors by proteasomes. Detailed processing analysis of three adjacent MHC-I ligands with partially overlapping sequences, i.e. VP2(273-281), VP2(284-292) and VP2(285-293), revealed the preferential generation predominantly of the VP2(285-293) epitope by immunoproteasomes due to altered cleavage site preferences. The VP2(285-293) peptide was identified to be a high affinity binder, rendering VP2(285-293) a likely candidate for CD8 T cell immunity in CVB3 infection. In conclusion, the concerted usage of different in silico prediction methods and in vitro epitope processing/presentation studies was supportive in the identification of CVB3 MHC-I epitopes.

PMID:
19997756
DOI:
10.1007/s00726-009-0434-5
[PubMed - indexed for MEDLINE]
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