Conformational B-Cell Epitope Prediction Method Based on Antigen Preprocessing and Mimotopes Analysis

Table 2

The prediction results on testing datasets.

PDB_ID	MimoPro/this method
	True epitopes	Predicted epitope	Sen	Spe	PPV	MCC	(Sen + Spe)/2	ACC
Antigen-antibody interactions
3IU3_I	23	34/32	0.61/0.61	0.75/0.78	0.41/0.44	0.18/0.19	0.68/0.69	0.72/0.74	0.49/0.51
1YY9_A	15	43/18	0.00/0.00	0.91/0.96	0.00/0.00	−0.01/−0.01	0.45/0.48	0.88/0.93	0.00/0.00
1N8Z_C	20	38/36	0.90/0.85	0.95/0.95	0.47/0.47	0.14/0.13	0.93/0.90	0.95/0.95	0.62/0.61
2ADF_A	15	24/20	0.87/0.87	0.90/0.94	0.54/0.65	0.23/0.25	0.89/0.90	0.90/0.93	0.67/0.74
1IQD_C	16	40/37	0.56/0.50	0.68/0.70	0.23/0.22	0.08/0.07	0.62/0/60	0.66/0.67	0.32/0.30
2GHW_A	29	38/37	0.48/0.48	0.80/0.81	0.37/0.38	0.13/0.14	0.64/0.64	0.73/0.74	0.42/0.42
2NY7_G	25	30/29	0.12/0.12	0.87/0.87	0.10/0.10	0.00/0.00	0.49/0.50	0.78/0.79	0.11/0.11
1G9M_G	15	47/46	0.73/0.73	0.83/0.84	0.23/0.24	0.10/0.10	0.78/0.79	0.83/0.83	0.35/0.36
1E6J_P	11	45/43	0.73/0.73	0.77/0.79	0.18/0.19	0.08/0.08	0.75/0.76	0.77/0.78	0.29/0.30
1ZTX_E	14	39/37	0.10/0.10	0.63/0.66	0.36/0.38	0.24/0.24	0.81/0.83	0.69/0.72	0.53/0.55
2AJF_A	20	43/39	0.10/0.10	0.90/0.91	0.05/0.05	0.00/0.00	0.50/0.50	0.86/0.87	0.06/0.07
1BJ1_W	19	32/32	0.68/0.68	0.72/0.72	0.41/0.41	0.19/0.19	0.70/0.70	0.72/0.72	0.51/0.51
1JRH_I	21	31/30	0.95/0.90	0.82/0.82	0.65/0.63	0.38/0.36	0.88/0.86	0.85/0.84	0.77/0.75
Protein-protein interactions
1AVZ_B	16	32/31	0.69/0.69	0.71/0.72	0.34/0.35	0.16/0.17	0.70/0.70	0.70/0.72	0.46/0.47
1HX1_B	20	38/38	0.75/0.75	0.69/0.69	0.39/0.39	0.20/0.20	0.72/0.72	0.70/0.70	0.52/0.52
2GSK_A	33	40/37	0.21/0.21	0.93/0.93	0.18/0.19	0.04/0.04	0.57/0.57	0.88/0.88	0.19/0.20
3EZE_B	20	27/26	0.75/0.70	0.74/0.74	0.56/0.54	0.29/0.27	0.75/0.72	0.75/0.73	0.64/0.61
1II4_A	30	41/39	0.60/0.60	0.69/0.72	0.44/0.46	0.18/0.19	0.64/0.66	0.66/0.68	0.51/0.52
Average			0.60/0.58	0.79/0.81	0.33/0.34	0.14/0.15	0.70/0.70	0.78/0.79	0.41/0.43