PREDIVAC: CD4+ T-cell epitope prediction for vaccine design that covers 95% of HLA class II DR protein diversity

BMC Bioinformatics

Table 1 HLA class II crystal structures employed to identify SDRs

Allele	Peptide sequence	PDB IDs
DRB1*0101	AAYSDQATPLL LS	1T5X; 1T5W
	AGFKGEQGPKG EPG	2FSE
	PEVIPMFSALS EGAT	1SJE
	PEVIPMFSALS EG	1SJH
	GELIGILNAAKV PAD	1KLG; 2IAM
	GELIGTLNAAKV PAD	1KLU; 2IAN
	GSDWRFLRGYHQ YA	1AQD
	PKYVKQNTLKL AT	1DLH; 1FYT; 1HXY; 1JWM; 1JWS; 1JWU; 1KG0; 1LO5; 2G9H; 2ICW; 2OJE; 1R5I
DRB1*0301	PVSKMRMATPLLM QA	1A6A
DRB1*0401	AYMRADAAAGG A	2SEB
DRB1*0401	PKYVKQNTLKL AT	1J8H
DRB1*1501	ENPVVHFFKNIVT P	1BX2; 1YMM
DRB1*1501	MDFARVHFISALHG LGGG	2WBJ
DRB3*0101	AWRSDEALPL G	2Q6W
DRB3*0301	QVIILNHPGQI SA	3C5J
DRB5*0101	GGVYHFVKKHVH ES	1H15
	NPVVHFFKNIVTPRT PPPSQ	1FV1
	VHFFKNIVTPRT PG	1ZGL
DQB1*0201	LQPFPQPELPY	1S9V
DQB1*0602	MNLPSTKVSWA AVGGGGSLV	1UVQ
DQB1*0302	SGEGSFQPSQE NP	2NNA
DQB1*0302	LVEALYLVCGE RGG	1JK8

The binding cores of the peptide ligands are highlighted in bold. Underlined PDB IDs represent the structures that were employed for structural alignment.

ISSN: 1471-2105