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A Computational Approach for Identifying Potential Phytochemicals Against Non-structural Protein 1 (Nsp1) of SARS-CoV-2

Author(s):

Alamgir Hossain*   Pages 1 - 11 ( 11 )

Abstract:


Aim and Objective: A recent study has revealed that non-structural protein 1 (Nsp1) of the SARS-CoV-2 is one of the novel targets for design and developing new antiviral drugs. To date, there is no significant exact medication is available to treat Covid-19 as a result both the death toll and the number of people affecting by this disease is increasing every day. 35 phytochemicals having antiviral properties were taken to get the best compounds against Nsp1

Materials and Methods: As no PDB structure of this protein is available, homology modeling was done to predict the probable structure. After homology modeling, the best model was taken according to C-score and TM- score and then validated by using different web servers. After validation, docking of these compounds was done using AutoDock vina, vega zz, and PyRx and consensus docking score was considered to select molecules after docking. Finally, the orbitals energy calculation of these compounds was done to check their activity and the binding interaction of these molecules were also analyzed.

Results: Molecules having a consensus score of -8kcal/mol or more negative were kept for further study and it was seen that 16 molecules had the given criteria. Then drug-likeness filtration was done according to Lipinski’s rule of five and 11 molecules remained. Out of these 11 molecules, 5 molecules had satisfactory ADMET properties. Calculation of orbital energy revealed their activity.

Conclusion: It is expected that this research might be helpful for the development of new antiviral drugs active against SARS-CoV-2 targeting Nsp1.

Keywords:

SARS-CoV-2, Nsp1, Homology modelling, molecular docking, ADMET, I-TASSER

Affiliation:

Department of Pharmacy, Jagannath University, Dhaka



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