Systematic Bioinformatic Approach for Prediction of Linear B-Cell Epitopes on Dengue E and prM Protein

Table 1

Epitopes predicted by bioinformatics on E protein with conservancy results.

ID of the predicted epitope	^#Epitope sequence	Epitope length (a.a.)	Method of prediction (score)	Percentage conservancy (min%)
				⁢Intraserotype				Pan-serotype
				DENV1	DENV2	DENV3	DENV4
Entire E protein sequence				96	93	97	95	63
EP1/E	SRDFVEGLSGATW; 8–20/DI	13	BepiPred (−1.6–0.26)	84	100	100	92	69
EP2/E	SGATWV; 16–21/DI	6	Ellipro (0.5)	83	100	100	83	66
EP3/E	CVTTMAKDKPTL; 30–41/DI	12	BepiPred (−0.06–0.95)	75	92	92	100	75
EP4/E	TEVTNPAV; 48–55/DI&DII	8	BepiPred (−0.13–0.71)	88	88	100	88	13
EP5/E	EAKISNTTTDSRCPTQGEATLVEEQDANFV CRRTFVDRGWGNGCGLFGKGSLITCAKFKCVT; 62–123/DII	62	Ellipro (0.8)	96	93	96	69	64
EP6/E	AKISNTTTDSRCPTQGEATLVEEQDAN; 63–89/DII	27	BepiPred (−0.12–1.6)	96	93	93	93	67
EP7/E	VDRGWGNGCGLF; 97–108/DII	12	BepiPred (−0.05–0.87)	100	83	100	100	83
EP8/E	HTGDQHQVGNESTEHGTTATITPQAPTTEIQLT; 144–176/DI	33	BepiPred (0.12–1.7)	88	85	88	90	42
EP9/E	PQAPTTEIQLTDYGALTL; 165–182/DI	17	Ellipro (0.6)	88	94	88	94	35
EP10/E	ALTLDCSPRTGLD; 180–192/DI	13	BepiPred (−0.05–0.9)	100	85	100	100	54
Ep11/E	LPWTSGASTSQETWNR; 218–233/DII	16	BepiPred (0.06–1.8)	94	88	88	81	37
EP12/E	GASTSQETW; 223–231/DII	9	Ellipro (0.6)	88	77	77	77	44
EP13/E	LVTFKTAHAKKQEVVVLGS; 237–255/DII	19	Ellipro (0.7)	94	94	100	84	63
EP14/E	TAHAKKQ; 242–248/DII	7	BepiPred (−0.04–0.78)	86	86	100	100	43
EP15/E	VLGSQEGAMHTALTGATEIQTSGTTTI; 252–278/DII & DI	27	BepiPred (−0.03–1.66)	93	96	96	89	55
EP16/E	FAGHLKCRLKMDKLTLKGMS; 279–298/DI	20	SVMTriP20 (0.9)	90	100	85	95	65
EP17/E	LKMDKLTLKGMSYVMCTGSFKLEKEVA; 287–313/DI&DIII	27	Ellipro (0.6)	92	88	92	96	48
EP18/E	FKLEKEVAETQHGT; 306–319/DIII	14	BepiPred (−0.14–0.95)	100	71	100	93	50
^¥EP19/E	KEVAETQHGTVLVQIKYEGT; 310–329/DIII	20	SVMTriP20 (1.0)	90	80	95	85	55
EP20/E	VQIKYEGTDAPCKIPFSTQDEKGVTQNG; 322–349/DIII	28	Ellipro (0.7)	92	82	96	85	35
EP21/E	YEGTDAPCKIPFSTQDEKGVTQNGRLIT; 326–353/DII	28	BepiPred (−0.16–1.5)	93	86	96	82	36
EP22/E	PIVTDKEKPVNIEAEPPFGES; 356–376/DIII	21	BepiPred (−0.12–1.7)	86	86	90	90	43
EP23/E	PIVTDKEKPV; 356–365/DIII	10	Ellipro (0.6)	80	80	80	80	10
EP24/E	PPFGESYIVIGAGEKALKLSWFKKGSSIGKMF; 371–402/DIII & Stem	32	Ellipro (0.6)	93	81	93	93	59
EP25/E	IGAGEKA; 380–386/DIII	7	BepiPred (−0.03–0.2)	71	86	71	71	29
EP26/E	KKGSSIGKMFEATARGA; 393–409/C-terminus	17	BepiPred (−0.04–0.6)	94	88	94	88	71
EP27/E	GDTAWDFGSIGGVFTSVGKL; 416–435/C-terminus	20	SVMTriP20 (0.9)	95	95	95	95	75
EP28/E	DTAWDFGSIGGVFT; 417–430/C-terminus	14	BepiPred (−0.06–0.6)	86	92	100	92	71
EP29/E	IGGVFTSVGKLVHQIFGTAYG; 425–445/C-terminus	21	Ellipro (0.6)	85	95	91	95	55
EP30/E	TMKIGIGVLLTWLGLNSRSTSLSMTCIAVGLITLY; 454–488/C-terminus	35	Ellipro (0.8)	91	91	94	88	42
EP31/E	IGVLLTWLGLNSRSTSLSM; 459–478/C-terminus	19	SVMTriP20 (0.8)	89	94	94	94	52
EP32/E	NSRSTSL; 469–475/C-terminus	7	BepiPred (−0.14–0.2)	86	100	86	100	57

Sequence position/domain. Epitope sequence is given with reference to DENV1 isolate AY713476. Epitopes that have been previously described by other authors (cited in the Discussion).