Table 3.

Results obtained with or without including fixed cysteines in the input peptides

PDB ID	Cysteines included	TEa	TPb/PEc P-valued
			PepSurf	Enshell-Seijffers et al.	MIMOP	3DEX
1G9M	+	18	14/36 5 × 10−10	14/34 2 × 10−10	2/26 0.61	0/56 1
	−	18	10/37 5 × 10−5	12/31 3 × 10−8	0/26 1	0/56 1
1E6J	+	15	14/23 6 × 10−14	7/11 2 × 10−6	11/19 9 × 10−10	0/20 1
	−	15	6/27 0.01	0/8 1	0/12 1	0/21 1
1N8Z	+	23	8/11 2 × 10−9	9/27 1 × 10−6	4/21 0.035	0/8 1
	−	23	0/10 1	9/27 1 × 10−6	3/12 0.02	0/10 1
1IQD	+	19	12/30 2 × 10−4	12/65 0.37	6/11 0.003	10/48 0.22
	−	19	12/32 5 × 10−4	13/65 0.2	10/23 0.005	9/52 0.53

^aNumber of residues in the true epitope.

^bNumber of true positives.

^cNumber of residues in the predicted epitope.

^dP-values of successful predictions are shown in bold type.