Table 1.
Omission mixture analysis of synthetic mimicry epitope
| PM1#11 stimulating peptide | Sequence | Omitted in X | 1 μM, cpm |
|---|---|---|---|
| Human GAD65 339–352 | TVYGAFDPLLAVAD | ||
| Library 1 epitope | SIAMAFDPOIPMAA | ||
| Library 2 epitope | TDSLAFEPKVPRRQ | ||
| Omission mixture | TDSXAFEPKVPRRQ | L, I, M, V, A, G, Y, F, C | 8,395 ± 1,536 |
| TDSLXFEPKVPRRQ | A, C | 2,885 ± 1,227 | |
| TDSLAXEPKVPRRQ | F, C | 28 ± 12 | |
| TDSLAFXPZVPRRQ | D, N, E, Q, S, T, A, V, G, C | 166,815 ± 13,517 | |
| TDSLAFEXKVPRRQ | P, C | 40 ± 12 | |
| TDSLAFBPXVPRRQ | K, R, H, P, C | 144,517 ± 7,736 | |
| TDSLAFEPKXPRRQ | L, I, M, V, A, G, C | 151 ± 97 | |
| TDSLAFEPKVXRRQ | P, A, C | 1,223 ± 632 |
The sequences of GAD65 339–352, the library 1 epitope, and the library 2 epitope are aligned. Relative positions 1–8 of the three peptides are highly similar (underlined). An omission mixture analysis of relative positions 1–8 of the library 2 epitope is described. Peptide mixtures based on the library 2 epitope were tested for stimulation of PM1#11 in a T cell proliferation assay at total concentrations of 1 μM (mean of triplicate, ± SD). In each mixture all natural l-amino acids were present at position X (underlined), except the amino acids omitted. At position Z (underlined) all natural l-amino acids, except C and D were present. Background counts were 127 ± 40 cpm (mean ± SD of triplicate). The positive control response against GAD65 339–352 was 166,587 ± 10,336 (mean ± SD of triplicate).