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. Author manuscript; available in PMC: 2015 May 21.
Published in final edited form as: Nat Commun. 2014 Nov 21;5:5369. doi: 10.1038/ncomms6369

Table 1.

Summary of cathepsin and HLA-DM sensitivity for epitopes tested in this study.

Epitopes tested for cathepsin sensitivity MHC II restriction Peptides detected on MALDI after digesting synthetic epitope with cathepsins HLA-DM susceptibility
graphic file with name nihms631039t1.jpg HLA-DR1 (DRB1*0101) PKYVKQNTLK (m/z 1218 Da) resistant
graphic file with name nihms631039t2.jpg HLA-DR1 (DRB1*0101) SNGNFIAPEYAYKIVK (m/z 1814 Da)
SNGNFIAPEY (m/z 1111 Da)		 resistant
graphic file with name nihms631039t3.jpg HLA-DR1 (DRB1*0101) None-detected resistant
graphic file with name nihms631039t4.jpg HLA-DR1 (DRB1*0101) SSFPVPT (m/z 734 Da)
GIYTYRIIK (m/z 1126Da)		 sensitive
graphic file with name nihms631039t5.jpg HLA-DR1 (DRB1*0101) AGFKGEQGPKGEPGPOH (m/z 1471 Da) sensitive
graphic file with name nihms631039t6.jpg HLA-DR1 (DRB1*0101) None-detected sensitive
graphic file with name nihms631039t7.jpg HLA-DR3 (DRB1*0301) NRERRGIALDGKIKHE (m/z 1892 Da)
NRERRGIALDGKIK (m/z 1627 Da)		 resistant
graphic file with name nihms631039t8.jpg HLA-DR3 (DRB1*0301) LSSVVVPSIRHFDV (m/z 1669 Da)
SVVVDPSIRHFDV (m/z 1469 Da)
LSSVVVDPSIRHF (m/z 1456 Da)
SVVVDPSIRHF (m/z 1255 Da)
LSSVVVDPSIR [m/z 1171 Da)		 resistant
graphic file with name nihms631039t9.jpg HLA-DR2a (DRB5*0101)
HLA-DR2b (DRB1*1501)		 VHFFKNIVTPR (m/z 1357 Da)
HFFKNIVTPR (m/z1258 Da)
FFKNIVTPR (m/z 1121 Da)		 sensitive
graphic file with name nihms631039t10.jpg HLA-DQ8 (DQA1 *0301/DQB1 *0302)
I-Ag7 		graphic file with name nihms631039t11.jpg n.d.
graphic file with name nihms631039t12.jpg I-AK DSAFDVLSFTAEEKAGVYK (m/z 2078 Da)
FTAEEKAGVYK (m/z 1242 Da)
DSAFDVLS (m/z 853 Da)
AEEKAGVYK (m/z 994 Da)		 n.d.

n.d. (not determined)