Molecular Docking Study of Antibiotics, Anti-Inflammatory Drugs and [Eu(TTA)3⋅AMX] Complex as COVID-19 Biomarker through Interaction of Its Main Protease (Mpro)

• Published in: Journal of computational biophysics and chemistry Vol. 20; no. 4; pp. 405 - 415
• Main Authors: da Fonseca, Aluísio Marques, de Araújo, Francisco Aurecio Morais, Carvalho, Rubson Mateus Matos, Silva de Menezes, Jorge Fernando, Sá Pires Silva, Andrei Marcelino
• Format: Journal Article
• Language: English
• Published: World Scientific Publishing Company 01.06.2021
• Subjects: europium complex; COVID-19; coronavirus; molecular docking; Receptor; ligand
• ISSN: 2737-4165; 2737-4173
• DOI: 10.1142/S2737416521500216

Coronavirus Acute Respiratory Syndrome (SARS-CoV-2) is a very recent viral infection and has generated one of the world’s biggest problems of all time. There is no scientific evidence and clinical trials to indicate that possible therapies have shown results in suspected or confirmed patients other than the use of immunizations. Given the above, some substances are being studied to be applied to contain their spread and further damage. This work aims to perform an in silico study of amoxicillin, widely known as an antibiotic and used to prevent bacterial infections and a possible biomarker made from a complex with Europium (Eu). It was shown to have the ability to interact with the COVID-19 protein in Mpro protease as ligands. The study was conducted using the AutoDock Vina with Lamarckian genetic model algorithm (GA) combined with the estimation of grid-based energy in rigid and flexible conformation. Compared to affinity energy, amoxicillin presented − 7 . 7 kcal/mol, which was better than its co-crystallized ligand in the study. The Europium complex, where its synthesis was also demonstrated in this work, presented energy of − 6 . 3 kcal/mol with hydrogen bonds and possible color change when UV light was applied. For the choice of the best poses in the simulation, the neural network parameter, NNScore2, was used. It can be affirmed that this study is still introductory but promising both in the treatment and identification of the virus. The Europium complex, where its synthesis was also demonstrated in this work, presented energy of –6.3 Kcal/mol with hydrogen bonds and possible color change when UV light was applied. For the choice of the best poses in the molecular docking simulation, the neural network parameter, NNScore2, was used. It can be affirmed that this study is still introductory but promising both in the treatment and identification of the virus.