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Online Journal of Bioinformatics
Established 1995

ISSN  1443-2250

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,