Identification of Potential Molecules Against COVID-19 Main Protease Through Structure-Guided Virtual Screening Approach

10 April 2020, Version 2
This content is a preprint and has not undergone peer review at the time of posting.


In this work, computer-aided drug design method has been implemented to quickly identify promising drug repurposing candidates against COVID-19 main protease (Mpro) . The world is facing an epidemic and in absence of vaccine or any effective treatment, it has created a sense of urgency for novel drug discovery approaches. We have made an immediate effort by performing virtual screening of clinically approved drugs or molecules under clinical trials against COVID-19 Mpro to identify potential drug molecules. With given knowledge of this system, N3 and 13B compounds have shown inhibitory effect against COVID-19 Mpro. Both the compounds were considered as control to filter out the screened molecules. Overall, we have identified six potential compounds, Leupeptin Hemisulphate, Pepstatin A, Nelfinavir , Birinapant, Lypression and Octeotide which have shown the docking energy > -8.0 kcal/mol and MMGBSA > -68.0 kcal/mol. The binding pattern of these compounds suggests that they interacted with key hot-spot residues. Also, their pharmacokinetic annotations and therapeutic importance have indicated that they possess drug-like properties and could pave their way for in-vitro studies. The findings of this work will be significant for structure and pharmacophore-based designing.


virtual screening
Molecular docking analysis
Binding free energy
Mpro protease


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