Computational Identification and Characterization of a Promiscuous T-Cell Epitope on the Extracellular Protein 85B of Mycobacterium spp. for Peptide-Based Subunit Vaccine Design

Table 3

Binding of epitopes of Ag85B from M. tuberculosis against MHC II molecules.

MHC II molecule	Strongest epitope				Number of strong binding epitopes	Number of weak binding epitopes
	Start position	Full peptide (15 mer)	Core peptide (9 mer)	Affinity (nM)
HLA-DRB10101	181	QQFIYAGSLSALLDP	FIYAGSLSA	4.5	106	105
HLA-DRB10301	269	LENFVRSSNLKFQDA	FVRSSNLKF	17.1	6	26
HLA-DRB10401	46	LPVEYLQVPSPSMGR	YLQVPSPSM	18.1	9	95
HLA-DRB10404	46	LPVEYLQVPSPSMGR	VEYLQVPSP	22.3	10	99
HLA-DRB10405	180	PQQFIYAGSLSALLD	FIYAGSLSA	18.5	18	65
HLA-DRB10701	179	HPQQFIYAGSLSALL	FIYAGSLSA	4.3	49	36
HLA-DRB10901	181	QQFIYAGSLSALLDP	YAGSLSALL	9.2	25	91
HLA-DRB11101	5	SRKIRAWGRRLMIGT	IRAWGRRLM	17.3	12	52
HLA-DRB11302	269	LENFVRSSNLKFQDA	FVRSSNLKF	13.5	8	35
HLA-DRB11501	3	DVSRKIRAWGRRLMI	KIRAWGRRL	13.9	9	90
HLA-DRB30101	74	PAVYLLDGLRAQDDY	YLLDGLRAQ	18	13	40
HLA-DRB40101	59	GRDIKVQFQSGGNNS	IKVQFQSGG	13.9	6	48
HLA-DRB50101	269	LENFVRSSNLKFQDA	FVRSSNLKF	9.2	21	67
HLA-DPA10103-DPB10401	132	CQTYKWETFLTSELP	YKWETFLTS	3.9	12	31
HLA-DPA10103-DPB10201	131	GCQTYKWETFLTSEL	YKWETFLTS	2.3	17	55
HLA-DPA10201-DPB10101	132	CQTYKWETFLTSELP	YKWETFLTS	7.7	17	40
HLA-DPA10201-DPB10501	132	CQTYKWETFLTSELP	YKWETFLTS	39.7	2	18
HLA-DPA10301-DPB10402	132	CQTYKWETFLTSELP	YKWETFLTS	21.7	10	44
HLA-DQA10101-DQB10501	114	GQSSFYSDWYSPACG	QSSFYSDWY	19.4	5	21
HLA-DQA10102-DQB10602	165	LSMAGSSAMILAAYH	GSSAMILAA	7.1	24	86
HLA-DQA10501-DQB10201	259	LGGANIPAEFLENFV	IPAEFLENF	34.5	3	24
HLA-DQA10501-DQB10301	27	GLVGLAGGAATAGAF	GLAGGAATA	3.7	82	94

Binding of epitopes of Ag85B from M. tuberculosis was predicted using NetMHCII 2.2 server in accordance with the instruction of the server. 22 MHC II molecules against which bindings were strong are shown. Binding affinity below 50 nM is considered strong. The strongest epitope bound to HLA-DRB10101 MHC II molecule is italicized.