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Table 5 MHC class II specific top scored antigenic peptides along with associated alleles

From: Insight into SNPs and epitopes of E protein of newly emerged genotype-I isolates of JEV from Midnapur, West Bengal, India

Start

Peptide

MHC-II binding scorea

Allele

(Human Leukocyte Antigen [HLA] specific)

Antigenic Scoreb

55

EVRSYYYHASVTDIS

0.25–1.76

DRB1*03:05,DRB1*04:01,DRB1*04:08,DRB1*04:09,DRB1*04:07,DRB1*04:21,

DRB1*04:17,DRB1*04:26,DRB1*04:62,DRB1*04:69,DRB1*04:74,DRB1*04:82,

DRB1*07:03,DRB1*07:01,DRB1*08:04,DRB1*09:07,DRB1*09:04,DRB1*09:01,

DRB1*09:09,DRB1*11:02,DRB1*11:21,DRB1*13:22,DRB1*15:06,DRB1*15:02

0.9127

95

GFTDRGWGKGCGLFG

5.37–17.95

DRB1*01:02,DRB1*03:05,DRB1*07:03,DRB1*08:01,DRB1*11:01,DRB1*11:28,

DRB1*13:05,DRB1*13:21,DRB1*15:02,DRB1*15:06,DRB5*01:05

0.9232

380

DSYIVVGRKDKQINH

0.1–1.97

DRB1*03:06,DRB1*03:05,DRB1*03:01,DRB1*03:08,DRB1*03:07,DRB1*08:01,

DRB1*08:04,DRB1*08:06,DRB1*11:01,DRB1*11:07,DRB1*13:07,DRB1*13:04,

DRB5*01:01,DRB5*01:05

1.5861

383

IVVGRKDKQINHHRH

0.4–4.04

DRB1*03:06,DRB1*03:05,DRB1*03:01,DRB1*03:08,DRB1*03:07,DRB1*04:02,

DRB1*08:01,DRB1*08:04,DRB1*08:06,DRB1*08:13,DRB1*11:02,DRB1*11:07,

DRB1*11:21,DRB1*13:01,DRB1*13:04,DRB1*13:27,DRB1*13:22

1.1724

  1. aPercentile score vary in allele specific manner. The less the score better is the binding. The range of scores was obtained by setting cut off. bAntigenic score was computed using Doytchinova and Flower's (2007) method [47]
  2. Epitopes were further checked for their efficacy in interactions at the peptide binding groove (see below)
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