The joint association of HLA-B27 and ERAP1 with ankylosing pondylitis (AS) suggests that the functional interaction between oth proteins may be critical to AS pathogenesis. The involvement f ERAP1 in the N-terminal trimming of peptides to their optimal ize for binding to MHC-I molecules further suggests that it may ffect the pathogenetic role of HLA-B27 by influencing the genration of specific epitopes, through a more general effect on the eptidome, which might influence the whole biological behavior f HLA-B27, or both. The present study was designed to assess eneral effects of natural ERAP1 polymorphism on the HLA-B27 eptidome. To this end we isolated the HLA-B27-bound peptide ools from several human cell lines expressing the same subtype B*27:04), but different natural variants of ERAP1, and compared hesizedistributionandothermolecular featuresofpeptides showng cell-dependent expression differences. Three pairwise comparisons of the HLA-B27 peptidomes isoated from cell lines expressing ERAP1 variants with different ombinations of AS-associated amino acid changes were carried ut by mass spectrometry, which also allowed us to estimate the elative expression levels of shared peptides among cell lines. Diferences in the expression and size of many peptides were found, hich were dependent both on the ERAP1 context and the Nerminal sequence features of the ligand precursors, but not on he internal sequence of the B27 ligands. The pattern strongly sugested significant differences in enzymatic activity among natural RAP1 variants. In addition, theHLA-B27molecule expressed in the ontext of the less active ERAP1 allotype showed lower thermostaility than all others. Our results indicate that: 1) ERAP1 polymorphism has a signifcant influence on the HLA-B27 peptidome through affecting the uantitative expression of many peptides: less active ERAP1 varints tend to favor longer peptides and to disfavor shorter ones, 2) hemolecular determinants of this influence are likely based on the usceptibility of the N-terminal sequence of the peptide precursors o ERAP1-mediated trimming, and 3) below a certain threshold of RAP1 activity, the effects on the peptidome result in decreased LA-B27 stability. This study is the first to show the effect of natual ERAP1 polymorphismon theHLA-B27 peptidome in vivo, and to uggest a mechanism for the functional interaction between these womolecules,which is likely to influence both in the pathogenesis f AS and other ERAP1/MHC-I associated diseases.
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