Pep-3D-Search: a method for B-cell epitope prediction based on mimotope analysis

BMC Bioinformatics

Table 6 Epitope prediction of the test case 1e6j (chain: P) based on motif mapping : motif sequence taken from Mimox is [DE]V [FM]GPL [STDE]TX-X [DE]; native epitope recorded in CED (id: CE0170) is ALGPAATEE (204–210, 212, 213) TA (216–217); parameters of Pep-3D-Search are similarity mode and AHA (distance threshold = 4).

No.	Residues and Locations of Candidate												Score
1*	D197	I201	L205	G206	P207	A209	E213	T216	M215	R162	D163	D166	2.1385
2*	D197	I201	L205	G206	P207	A209	E213	T210	L211	Y169	R167	D166	2.1385
3*	D197	I201	L205	G206	P207	A209	E213	T216	E212	M215	R162	D163	2.1385
4*	D197	I201	K203	G206	P207	A209	E213	T216	E212	L211	Y169	D166	2.1385
5*	D197	I201	K203	G206	P207	A209	E213	T210	M214	M215	R162	D166	2.1385
6*	D197	I201	L205	G206	P207	A208	A209	T210	L211	Y169	V165	D163	2.1385
7*	D197	I201	L205	G206	P207	A208	A209	T210	E213	L211	Y169	D166	2.1385
8*	D197	I201	L205	G206	P207	A209	E213	T210	M214	A217	T216	E212	2.1385
9*	D197	I201	L205	G206	P207	A209	E213	T216	A217	Q219	M215	E212	2.1385
10*	D197	I201	L205	G206	P207	A209	E213	T210	E212	M214	V191	E187	2.1385

ISSN: 1471-2105