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Journal of Bioinformatics©
Established 1995
ISSN 1443-2250
Volume 19(2):189-199, 2018.
In Silico prediction of putative epitopes in structural polyprotein of Chikungunya virus.
J. Asnet Mary1(M.Sc., ADBI), S. Kavitha1(M.Sc), V. Victoria1(M.Sc.,), R. Paramasivan2(PhD),
R.Shenbagarathai1(PhD)*, P. Selvanayagam1(PhD), T.
Madhanmohan3(PhD).
1. Bioinformatics Centre, Department of Biotechnology, Lady Doak College, 2. CRME (ICMR), Madurai 3. Department of Biotechnology, New Delhi, India.
Asnet Mary J, Kavitha S, Victoria V, Paramasivan
R, Shenbagarathai R, Selvanayagam
P, Madhanmohan T., In Silico prediction of putative epitopes in structural
polyprotein of Chikungunya virus, Onl J Bioinform., 19(2):189-188,
2018. Chikungunya fever (CHIKF) is associated
with acute fever, pain, asthenia, skin rash and polyarthritis and rarely, encephalitis
in humans. It is mainly transmitted by Aedes aegypti and Aedes albopictus and there is
no treatment. We predict putative viral epitopes of Chikungunya virus (CHIKV)
by subjecting its complete genome sequence to in silico analysis. The Open reading frame (ORF) in the CHIKV genome
and respective putative proteins were predicted wit
BLASTP. Based on accessibility, flexibility,
hydrophilicity, β-turn
and linearity, the
structural polyprotein was identified and analyzed for B-cell epitopes. Among the 17 B-cell epitopes predicted using BCPred server, one epitope falls in the capsid protein with
the residues range from 85 – 104 amino acid and was found to be immunogenic in
the entire structural polyprotein of CHIKV with BCIPEP
database with the maximum score in
biochemical properties of an epitope. In order to identify whether the peptides
are processed and presented with MHC molecules, the predicted B-cell epitope was
then scanned for T-cell epitopes, MHC class I binding sites, with PROPDEL.
Results showed binding
with 25 MHC alleles in humans. This In silico analysis
supports epitopes of CHIKV for In vivo analysisl
vaccine.
Keywords: CHIKV,
Epitope, BCPred, Bcipep, MHC,
Aedes aegypti,
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