tetano
Editor, Senior Moderator
Mol Biomed
. 2021 Sep 20;2(1):28.
doi: 10.1186/s43556-021-00050-3.
Computationally repurposed drugs and natural products against RNA dependent RNA polymerase as potential COVID-19 therapies
Sakshi Piplani[SUP] 1 2 [/SUP], Puneet Kumar Singh[SUP] 2 [/SUP], David A Winkler[SUP] 3 4 5 [/SUP], Nikolai Petrovsky[SUP] 6 7 [/SUP]
Affiliations
Abstract
Repurposing of existing drugs and drug candidates is an ideal approach to identify new potential therapies for SARS-CoV-2 that can be tested without delay in human trials of infected patients. Here we applied a virtual screening approach using Autodock Vina and molecular dynamics simulation in tandem to calculate binding energies for repurposed drugs against the SARS-CoV-2 RNA-dependent RNA polymerase (RdRp). We thereby identified 80 promising compounds with potential activity against SARS-Cov2, consisting of a mixture of antiviral drugs, natural products and drugs with diverse modes of action. A substantial proportion of the top 80 compounds identified in this study had been shown by others to have SARS-CoV-2 antiviral effects in vitro or in vivo, thereby validating our approach. Amongst our top hits not previously reported to have SARS-CoV-2 activity, were eribulin, a macrocyclic ketone analogue of the marine compound halichondrin B and an anticancer drug, the AXL receptor tyrosine kinase inhibitor bemcentinib. Our top hits from our RdRp drug screen may not only have utility in treating COVID-19 but may provide a useful starting point for therapeutics against other coronaviruses. Hence, our modelling approach successfully identified multiple drugs with potential activity against SARS-CoV-2 RdRp.
Keywords: Drug repurposing; Molecular docking; Molecular dynamics; RNA-dependent RNA polymerase; SARS-CoV-2.
. 2021 Sep 20;2(1):28.
doi: 10.1186/s43556-021-00050-3.
Computationally repurposed drugs and natural products against RNA dependent RNA polymerase as potential COVID-19 therapies
Sakshi Piplani[SUP] 1 2 [/SUP], Puneet Kumar Singh[SUP] 2 [/SUP], David A Winkler[SUP] 3 4 5 [/SUP], Nikolai Petrovsky[SUP] 6 7 [/SUP]
Affiliations
- PMID: 35006427
- DOI: 10.1186/s43556-021-00050-3
Abstract
Repurposing of existing drugs and drug candidates is an ideal approach to identify new potential therapies for SARS-CoV-2 that can be tested without delay in human trials of infected patients. Here we applied a virtual screening approach using Autodock Vina and molecular dynamics simulation in tandem to calculate binding energies for repurposed drugs against the SARS-CoV-2 RNA-dependent RNA polymerase (RdRp). We thereby identified 80 promising compounds with potential activity against SARS-Cov2, consisting of a mixture of antiviral drugs, natural products and drugs with diverse modes of action. A substantial proportion of the top 80 compounds identified in this study had been shown by others to have SARS-CoV-2 antiviral effects in vitro or in vivo, thereby validating our approach. Amongst our top hits not previously reported to have SARS-CoV-2 activity, were eribulin, a macrocyclic ketone analogue of the marine compound halichondrin B and an anticancer drug, the AXL receptor tyrosine kinase inhibitor bemcentinib. Our top hits from our RdRp drug screen may not only have utility in treating COVID-19 but may provide a useful starting point for therapeutics against other coronaviruses. Hence, our modelling approach successfully identified multiple drugs with potential activity against SARS-CoV-2 RdRp.
Keywords: Drug repurposing; Molecular docking; Molecular dynamics; RNA-dependent RNA polymerase; SARS-CoV-2.
