. Author manuscript; available in PMC: 2009 Aug 15.

Published in final edited form as: Virology. 2008 Jun 25;378(1):105–117. doi: 10.1016/j.virol.2008.04.043

Table II.

Results of ELISPOT, binding assay and PRED^BALB/c prediction for the CD4-positive ELISPOT 15mer peptides of the yellow fever envelope protein

Peptide position/allele	Peptide sequence	# IFN-γ SFC CD8⁺-depleted	Binding Assay (IC₅₀ in nmol)		PRED^BALB/c score ⁽²⁾
Peptide position/allele	Peptide sequence	# IFN-γ SFC CD8⁺-depleted	I-A^d⁽¹⁾	I-E^d	PRED^BALB/c score ⁽²⁾
E_25–39	LEQDKCVTVMAPDKP	39	2412⁽⁴⁾	>45000
I-A^d	EQDKCVTVM⁽³⁾				9.40
	DKCVTVMAP				9.60
	CVTVMAPDK				9.50

E_57–71	RKVCYNAVLTHVKIN	106	2848	5408
I-A^d	YNAVLTHVK				9.20
E^d	YNAVLTHVK				9.14

E_61–75	YNAVLTHVKINDKCP	78	11582	>45000
I-A^d	YNAVLTHVK				9.20
I-E^d	YNAVLTHVK				9.14
	LTHVKINDK				9.80
	THVKINDKC				9.50

E_129–143	EVDQTKIQYVIRAQL	113	53^*	>45000
I-A^d	QTKIQYVIR				9.30
	TKIQYVIRA				9.50
	IQYVIRAQL				9.10
I-E^d	QTKIQYVIR				9.42
	KIQYVIRAQ				9.70

E_133–147	TKIQYVIRAQLHVGA	158	14^*	9073
I-A^d	TKIQYVIRA				9.50
	IQYVIRAQL				9.10
	QYVIRAQLH				9.60
I-E^d	KIQYVIRAQ				9.70
	VIRAQLHVG				9.42

E_157–171	KTLKFDALSGSQEVE	97	1348	>45000
I-E^d	KTLKFDALS				9.44

E_201–215	ESWIVDRQWAQDLTL	73	>45000	6358
I-A^d	SWIVDRQWA				9.34

E_213–227	LTLPWQSGSGGVWRE	72	>45000	38812

E_221–235	SGGVWREMHHLVEFE	26	2519	23454
I-A^d	SGGVWREMH				9.20

E_233–247	EFEPPHAATIRVLAL	58	89^*	111^*
I-A^d	AATIRVLAL				9.70

E_237–251	PHAATIRVLALGNQE	98	89^*	7053
I-A^d	AATIRVLAL				9.70
	TIRVLALGN				9.68
I-E^d	ATIRVLALG				9.38

E_425–439	GFFTSVGKGIHTVFG	46	60^*	6170

E_437–451	VFGSAFQGLFGGLNW	79	3511	14977

E_461–475	LIWVGINTRNMTMSM	24	2393	31407
I-A^d	INTRNMTMS				9.10
I-E^d	LIWVGINTR				9.80

E_465–479	GINTRNMTMSMSMIL	52	964^*	3186
I-A^d	INTRNMTMS				9.10
	TRNMTMSMS				9.60

E_473–487	MSMSMILVGVIMMFL	52	4588	>45000
I-A^d	MSMILVGVI				9.70
	MILVGVIMM				9.60

E_477–491	MILVGVIMMFLSLGV	35	1368	>45000
I-A^d	MILVGVIMM				9.60
	VGVIMMFLS				9.20

A list of 94 peptides selected by PRED^BALB/c with score above 9 was compared to the CD4 ELISPOT results. The 9mers selected by the prediction software are shown below each 15mer peptide.

⁽¹⁾

Molecules of H2^d class II

⁽²⁾

PRED^BALB/c software scores

⁽³⁾

options of 9mer peptides within each 15mers analyzed and scored above 9 by PRED^BALB/c

⁽⁴⁾

IC₅₀ (nmol) results for the binding assay of H2^d class II molecules

values of IC₅₀ below the cutoff of 1000nmol, suggestive of a possible binder peptide; Shading – peptides positive for CD4 response by ELISPOT (Fig. 2C) did not predict by PRED^BALB/c above a threshold of 9.