Journal of Data Mining in Genomics & Proteomics

Abstract

Computational Approach to Identify the Major Histocompatibility Complex Binding Antigenic Peptides from ‘Ascariasis’

Mishra S and Gomase VS

The Ascaris lumbricoides cause ‘ascariasis’ in human and its elimination is the major public concern. In this current investigation, we predicted the MHC (Major Histocompatibility Complex) class I & II binding peptides with computational approach like PSSM (Position Specific Scoring Matrices) and SVM (Support Vector Machine) algorithms. We predict the peptide binders of Cytochrome b (mitochondrion) protein from Ascaris lumbricoide sequence to MHC-I molecules are as 11mer_H2_Db, 10mer_H2_Db, 9mer_H2_Db, 8mer_H2_Db. Also study integrates prediction of peptide MHC class I binding; proteasomal C terminal cleavage and TAP transport efficiency by using sequence and properties of the amino acids. We also found the binding of peptides to different alleles by using Position Specific Scoring Matrix. Cytochrome B from Ascaris lumbricoides (365 residues long) with 357 nonamers having antigenic MHC binding peptides. PSSM based server will predict the peptide binders from sequence to MHCII molecules are as I_Ab.p, I_Ad.p, I_Ag7, which are found antigenic epitopes region in Cytochrome B from Ascaris lumbricoides. This investigation can be useful in rational vaccine design and simultaneously increase the understanding the role of the immune system against antigenic.