TABLE 4.

Epitope prediction analysis of E2 ectodomain^a

Isolate	HLA-A0201				HLA-B2705				HLA-B5151				HLA-A3				HLA-B5101
	49 SLNTGFLASL 58	C	Pr	Score	71 GRLASCRSL 79	C	Pr	Score	107 YAPRPCGI 114	C	Pr	Score	54 FLASLFYVHK 63	C	Pr	Score	87 GPLGVANI 94	C	Pr	Score
Ed43		−	N	31	ECK	−	N			+	P	29	T	+	N			+	P	31
Egy13	F	−	N	25		−	N	27		+	P	29	FT	+	N		K	+	P	25
Egy28		−	N	31	ERK	−	N			+	P	29	T	+	N		K	+	P	31
Egy31		−	N	31	E	−	N	24	Q	+	P	26	A	+	P	24	EA	+	P	31
Egy37		−	N	31	EK	−	N	24		+	P	29	T	+	N			−	N	31
Egy49a		−	N	31	EGK	−	N	26					A	+	P	24		−	N	31
Egy49b										+	P	29	T	+	N
Egy68	QN	−	N	28	QRKR	−	N	24	Q	+	P	26	NFQ	+	P	25		−	N	28
Egy76		−	N	31	ESK	−	N			+	P	29	T	+	N		K	+	P	31
Egy87		−	N	31	DSK	−	N		PQ	+	P	27	T	+	N		R	+	P	31
Egy157	ISG	−	N	28	ERR	−	N	25		+	P	29	ISGAF	+	N			+	P	28
Egy162		−	N	31	EQ	−	N	24	Q	+	P	26	GTR	+	N		K	−	N	31
Egy198	G	−	N	30	E	−	N	24		+	P	29	GT	+	P	24	S	−	N	30
Egy205		−	N	31	EK	−	N	24		+	P	29		+	P	25		+	P	31

^aEach isolate was analyzed for the presence of alpha helix, proteosome cleavage, and prediction. The table shows the epitopes common to all isolates. The sequence and the position are shown. The presence or absence of proteosome cleavage (C) is indicated by + or −, respectively. The probability of epitope existence is summarized in column Pr (N, not probable; P, probable). Only scores of >23 are considered.