TABLE 2

Predicted HLA binding and proteasomal cleavage scores of putative epitopes

PeptideSequenceSYFPEITHI score*BIMAS binding scoreNetChop 2.0 score
1IGRP(152-160)FLWSVFWLI205,6760.849
2GFAP(143-151)NLAQDLATV301600.994
3IGRP(215-223)FLFAVGFYL2211,5980.957
4GFAP(192-200)SLEEEIRFL27140.769
5GFAP(214-222)QLARQQVHV24700.914
6ppIAPP(9-17)FLIVLSVAL27980.904
7IGRP(293-301)RLLCALTSL281820.977
8ppIAPP(12-20)VLSVALNHL26840.998
9IGRP(211-219)NLFLFLFAV2713,0450.955
10GFAP(386-394)§NLQIRETSL22210.998
11GFAP(57-65)§ALNAGFKET20140.942
12GFAP(147-155)§DLATVRQKL2310.969
  • *

    * SYFPEITHI score was calculated by assigning values to each amino acid within a peptide based on similarity to residues of epitopes known to bind a given major histocompatibility complex molecule with a high avidity;

  • BIMAS binding score is the predicted half time of disassociation (in minutes) of an HLA molecule containing the indicated peptide sequence;

  • probability of carboxyl terminal proteasomal cleavage as calculated by NetChop 2.0;

  • §

    § peptides predicted to contain carboxyl terminal cleavage site but not bind strongly to HLA-A2 by either SYFPEITHI or BIMAS.