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IN SILICO STUDY OF MHC, CD8 AND CTL BINDING REGIONS PRESENT IN STAPHYLOCOCCUS AUREUS AS IMMUNOGENS

Keywords: Staphylococcus aureus , S. aureus vaccine , cell mediated immunity , insilico methods , MHC binding regions.

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Abstract:

Staphylococcus aureus vaccine is used to treat S. aureus infection that may not respond to conventional antibiotics therapy. It is believed to elicit cell mediated immune response. The study was carried out with the aid of computational tools and programs like NCBI, ClustalW, Hex 4.2, CASTp. We have predicted high conservation regions between S. aureus surface proteins and MHC I (Major Histocompatibility Complex) which were used to derive stable structures with MHC I by using Hex as a tool. Analysis of binding pockets by CASTp. Evaluation of stable docked complexes was done by docking with CD8. This complex was docked with the T-cell receptor. Docked structures were selected by minimum energy values. Sequence alignment of MHC 1 and staphylococcal antigens showed that a few antigens had highest similarity with MHC 1. The CASTp results showed the extracellular adhesion protein and collagen binding surface protein could be good elicitors of immunological response. Evaluation of some of the antigens by docking with CD8+ and MHC alpha domain confirm that not only do the proteins bind to MHC 1 but also bind to CD8+ molecules on the CTL (cytotoxic T lymphocyte) cell via the T-cell receptor. By understanding the MHC binding regions which are specific to the antigens present in ASL we can eluciate the immunogenic ability of ASL (autologous Staphylococcus lysate). The problem in subunit vaccine design of searching for antigenic regions in an antigen that can stimulate T cells and T cell epitopes has been overcome by using insilico methods that integrates prediction of peptide MHC I class binding, CD8+ and MHC I binding and identification of peptides that can stimulate CTLs.

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