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INSILICO DESIGN OF EPITOPE BASED PEPTIDE VACCINEAGANST VIRULENTSTRAINS OF CANINE PARVOVIRUS
Abubaker, A. Elayis1; Yasir, A. Almofti2; Mohamed Ahmed Salih3 and Koubaeb4
1Department of Internal Medicine, College of Veterinary Medicine, University of Bahri, Sudan.
2Department of Biochemistry, College of Veterinary Medicine, University of Bahri, Sudan.
3Department of Biochemistry, College of Veterinary Medicine, University of Bahri Sudan.
4Department of Biochemistry, College of Veterinary Medicine, University of Bahri, Sudan.
This research aiming at designing new epitopes (Multiple Antigen Peptide) (MAP) vaccine by using Insilico software of Bioinformatics, because vaccines based on synthetic peptides would be safe and easy to produce. 22 capsid protein (VP2) amino acid residues of Canine Parvovirus (CPV) were retrieved from National Center of Biotechnology Information (NCBI). The retrieved sequences were aligned to obtain conserved regions using Multiple Sequence Alignment (MSA) software. Sequences aligned with the assist of Clustal W. as prelocate in the Bio Edit program. Chosen epitopeswre analyzed by different prediction tools from Immune Epitope Database (IEDB) which assist in the prediction and analysis of B cell and T cell epitopes. Bepired software from IEDB was used for linear B cell epitopes prediction from the conserved region with a dereliction threshold value of 0.306. By using Emini surface accessibility prediction tool of IBED. The surface accessibility of epitopes was predicted from the conserved region contract the default threshold value of 1.000 or higher. The Kolaskar and Tongaolsnkar antigenicity method was used to determine the antigenic sites with a threshold value of 1.033. Selected epitopes of MHC1 were turned into 3D models using PEP_FOLD online peptide modeling tool. Models were examined to obtain dog DLA by using Patchdock software. 6 peptides were suggested to form MAP vaccine. The selected peptides were: 157SATQPPTKV165 (peptide interacts with B cells), 336EVGYSAPYY344 (peptide interacts with B cells), 211YYFQWDRTL219 (peptide interacts with MHCI and T cells), 245YTIENSVPV253 (peptide interacts with MHCI and T cells), 16VRNERATGS24 (peptide interacts with MHCIIO and T cells) and 59WVEITANSS67 (peptide interacts with MHCII and T cells).