title: Antitopes define preferential proteasomal cleavage site usage.
abstract: Protein degradation by proteasomes is a major source of peptides presented by major histocompatibility v complex class I proteins. Importantly, interferon gamma-induced immunoproteasomes in many cases strongly enhance the generation of antigenic peptides both in vitro and in vivo. Whether this is due to enhanced substrate turnover or to a change in proteasomal cleavage specificity is, however, largely unresolved. To overcome the problems of peptide quantification inherent to mass spectrometry, we introduced the "antitope" as substrate-specific internal standard. The antitope is a non-functional peptide that is generated by proteasomal cleavage within the epitope, resulting in partial overlaps with the functional epitope. Using antitopes as internal standards we demonstrate that the observed enhanced immunoproteasome-dependent presentation of the bacterial listeriolysin O T-cell epitope LLO(296-304) is indeed due to altered cleavage preferences. This method is also applicable to other major histocompatibility class I epitopes as is shown for two potential epitopes derived from Coxsackievirus.
authors.affiliation: Institut für Biochemie and Klinik für Kardiologie und Pulmologie, Charité-Universitätsmedizin, and Max-Planck-Institut für Infektionsbiologie, Berlin, Germany.
authors.forename: Britta
authors.initials: B
authors.lastname: Strehl
authors.forename: Kathrin
authors.initials: K
authors.lastname: Textoris-Taube
authors.forename: Sandra
authors.initials: S
authors.lastname: Jäkel
authors.forename: Antje
authors.initials: A
authors.lastname: Voigt
authors.forename: Peter
authors.initials: P
authors.lastname: Henklein
authors.forename: Ulrich
authors.initials: U
authors.lastname: Steinhoff
authors.forename: Peter-Michael
authors.initials: PM
authors.lastname: Kloetzel
authors.forename: Ulrike
authors.initials: U
authors.lastname: Kuckelkorn
mesh_terms: D000595:Amino Acid Sequence; D000818:Animals; D001665:Binding Sites; D018834:Chaperonin 60 / Q000737:chemistry; D004770:Enterovirus / Q000378:metabolism; D000939:Epitopes / Q000737:chemistry*; D013058:Mass Spectrometry / Q000379:methods; D051379:Mice; D008810:Mice, Inbred C57BL; D008969:Molecular Sequence Data; D009097:Multienzyme Complexes / Q000737:chemistry; D010455:Peptides / Q000737:chemistry; D046988:Proteasome Endopeptidase Complex / Q000737:chemistry*; D011485:Protein Binding; D017471:Receptors, Interferon / Q000235:genetics; D013379:Substrate Specificity; D000096743:Interferon gamma Receptor
chemical_list: D018834:Chaperonin 60; D000939:Epitopes; D009097:Multienzyme Complexes; D010455:Peptides; D046988:Proteasome Endopeptidase Complex; D017471:Receptors, Interferon; D000096743:Interferon gamma Receptor