Designing antivirals against rabies using molecular docking and protein modeling

• Autor(a) principal: Aguiar, Joana Rocha da Silveira Barreto de
• Data de Publicação: 2021
• Tipo de documento: Dissertação
• Idioma: eng
• Título da fonte: Biblioteca Digital de Teses e Dissertações da USP
• Texto Completo: https://www.teses.usp.br/teses/disponiveis/10/10134/tde-13122021-161816/
• topic: Antivirais; Antivirals; Docking molecular; Homologia; Homology; Molecular docking; Proteína; Proteins; Rabies; Raiva

Rabies is a zoonotic disease that mainly affects poor population in developing countries. While there is an efficient vaccine for it, many of those in the areas most affected by the disease can be unaware of the vaccine and their need for it, may be unable to reach an area where the vaccines are readily available, or may be unable to pay for the high cost of vaccination and immunoglobulin. This project aimed to find a potential treatment for the disease when it has already reached its later stages, so those who cant access vaccination still have a chance of surviving this lethal disease. This project focused on the bioinformatics capability of finding potential ligands that could inactivate or block all five proteins or rabies, so that they would be unable to bind to host receptors, or to damage the immune system of patients. All five proteins of rabies from nineteen different strains (ninety-five proteins) were modeled through homology modeling, and twenty-six drug-like ligands that passed Lipinskis rule of five were chosen. The first docking step was to put all ninety-five proteins through a blind docking with each of the twenty-six ligands to narrow down the number of ligands and analyze potential active sites. After all the blind dockings were concluded, seventeen ligands were chosen for the active site docking, which also considered specific residues (found from literature, bioinformatic tools, and analysis of blind docking) as potential active sites of each protein. The blind docking results were also visualized and analyzed for both the binding energies of each binding as well as the location of the connections. The number of times each of the residues from the potential active sites were accessed were also analyzed. The ligands that had the best results overall were narrowed down to four and analyzed both for their structure and pharmacology in the context of rabies infection. Potential active sites were also analyzed and narrowed down to the most likely active sites for each protein.