Investigation on penetration of saffron components through lipid bilayer bound to spike protein of SARS-CoV-2 using steered molecular dynamics simulation. Issue 12 (December 2020)

• Record Type: Journal Article
• Authors: Kordzadeh, Azadeh; Ramazani Saadatabadi, Ahmad; Hadi, Amin
• Is Part Of: Heliyon. Volume 6:Issue 12(2020)
• Publication Date: 2020-12
• Subjects: SARS-CoV-2 -- Molecular dynamics simulation -- Crocin -- Crocetin -- Safranal -- Picrocrocin -- Bioinformatics -- Biomedical engineering -- Biotechnology -- Molecular biology -- Proteins; Research -- Periodicals; Medical sciences -- Periodicals; Natural history -- Periodicals; Social sciences -- Periodicals; Earth sciences -- Periodicals; Physical sciences -- Periodicals; 507.2
• DOI: 10.1016/j.heliyon.2020.e05681
• Languages: English
• ISSNs: 2405-8440

Abstract

Abstract: A coronavirus identified as COVID-19 is the reason for an infection outbreak which is started in December 2019. NO completely effective drugs and treatments are not recognized for this virus. Recently, saffron and its compounds were used to treat different viral diseases. Saffron extract and its major ingredients have shown antiviral effects. In this study, the steered molecular dynamics simulation was used for investigating the effect of four main components of saffron that include: crocin, crocetin, safranal, and picrocrocin as candidate for drug molecules, on COVID-19. The binding energies between drug molecules and spike protein and the main protease of the virus were evaluated. The obtained results based on Lennard-Jones and electrostatic potentials demonstrated that crocetin has a high affinity towards spike protein and also the main protease of the virus. Also, the quantum mechanics calculations elucidated that the crocetin could overcome energy barrier of lipid bilayer with strong dipole moment and polarizability. The pharmacokinetic and ADMET properties proved that crocetin could be a suitable drug candidate. So, crocetin could be a promising drug for treatment of COVID-19. Abstract : SARS-CoV-2, molecular dynamics simulation, crocin, crocetin, safranal, picrocrocin; Bioinformatics; Biomedical Engineering; Biotechnology; Molecular Biology; Proteins.