Rockefeller University Press

Table II.

Design of Search Algorithms Based on the HLA-DQ2 Peptide-binding Motif and the tTG Specificity

DQ2 peptide-binding motif
Residue	1	2	3	4	5	6	7	8	9	10
Preferred	F, W, Y, I, L, V			D, E, V, L, I		P, A, E	D, E		F, W, Y, I, L, V, M	-
DQ2 epitope search algorithms
Algorithm 1	X	X	X	Q	X	P	Q	X	F, Y, W, I, L	X
Algorithm 2	X	X	X	Q	X	P	Q	X	P	F, Y, W, I, L

DQ2 peptide-binding motif
Residue	1	2	3	4	5	6	7	8	9	10
Preferred	F, W, Y, I, L, V			D, E, V, L, I		P, A, E	D, E		F, W, Y, I, L, V, M	-
DQ2 epitope search algorithms
Algorithm 1	X	X	X	Q	X	P	Q	X	F, Y, W, I, L	X
Algorithm 2	X	X	X	Q	X	P	Q	X	P	F, Y, W, I, L

X stands for any amino acid.