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SVM based Prediction of Major Histocompatibility Complex Binders: Identification and Analysis of Dracunculus medinensis Peptide

Author

Listed:
  • Sonu Mishra
  • Virendra Gomase

    (Department of Biotechnology, Mewar University, India)

  • Karbhari V Kale

    (Department of Computer Science and IT, Dr.Babasaheb Ambedkar Marathwada University, India)

Abstract

The largest human infecting parasite causes guinea worm disease, known as the disease and cause of poverty due to unavailability of the sanitized water. This is not lethal but causes the long term morbidity and motility in the infected human. In this research work, we predict the peptide binders of antigenic protein from D. medinensis 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. NADH dehydrogenase subunit 6 (mitochondrion) from D. medinensis is 145 residues long with 137 nonamers having antigenic MHC binding peptides. PSSM based server will predict the peptide binders from D.medinensis of NADH dehydrogenase subunit 6 sequence to MHC-II molecules are as I_Ab.p, I_Ad.p, I_Ag7.p,I_Ak.p which are found antigenic epitopes region in NADH dehydrogenase subunit 6 (mitochondrion) from D. medinensis.

Suggested Citation

  • Sonu Mishra & Virendra Gomase & Karbhari V Kale, 2016. "SVM based Prediction of Major Histocompatibility Complex Binders: Identification and Analysis of Dracunculus medinensis Peptide," Organic & Medicinal Chemistry International Journal, Juniper Publishers Inc., vol. 1(2), pages 54-59, May.
    • Handle: RePEc:adp:jomcij:v:1:y:2016:i:2:p:54-59
    DOI: 10.19080/OMCIJ.2016.01.555557
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