In Silico Studies Reveal Antiviral Effects of Traditional Indian Spices on COVID-19

Brijesh Kumar; Sama Zaidi; Shafiul Haque; Nandita Dasgupta; Arif Hussain; Sreepoorna Pramodh; Vineeta Singh; Bhartendu N Mishra

doi:10.2174/1381612826666201223095548

In Silico Studies Reveal Antiviral Effects of Traditional Indian Spices on COVID-19

Curr Pharm Des. 2021;27(32):3462-3475. doi: 10.2174/1381612826666201223095548.

Authors

Brijesh Kumar¹, Sama Zaidi¹, Shafiul Haque², Nandita Dasgupta¹, Arif Hussain³, Sreepoorna Pramodh⁴, Vineeta Singh¹, Bhartendu N Mishra¹

Affiliations

¹ Department of Biotechnology, Institute of Engineering and Technology, Dr. A.P.J. Abdul Kalam Technical University, Lucknow 226021 (Uttar Pradesh), India.
² Research and Scientific Studies Unit, College of Nursing and Allied Health Sciences, Jazan University, Jazan-45142, Saudi Arabia.
³ School of Life Sciences, Manipal Academy of Higher Education, P.O. Box 345050, Dubai, United Arab Emirates.
⁴ Department of Life and Environmental Sciences, College of Sustainability Natural & Health Sciences & Humanities, Zayed University, P.O. Box 19282, Dubai, United Arab Emirates.

PMID: 33357192
DOI: 10.2174/1381612826666201223095548

Abstract

Background: The global health emergency due to SARS-CoV-2 causing the COVID-19 pandemic emphasized the scientific community to intensify their research work for its therapeutic solution. In this study, Indian traditional spices owing to various medicinal properties were tested in silico for their inhibitory activity against SARS-CoV-2 proteins. SARS-CoV-2 spike proteins (SP) and main proteases (M^pro) play a significant role in infection development were considered as potential drug targets.

Methods: A total of 75 phytochemicals present in traditional Indian spices retrieved from the published literature and Dr. Duke's Phytochemical and Ethnobotanical Database, were docked with M^pro (PDB IDs: 6YNQ), and the SP (PDB IDs: 6LXT and 6YOR).

Results: Through the screening process, 75 retrieved phytochemicals were docked with spike protein (PDB IDs: 6LXT and 6YOR) and main protease (PDB ID: 6YNQ) of SARS-CoV-2. Among them, myricetin, a flavonoid (rank score: 6LXT: -11.72383; 6YOR: -9.87943; 6YNQ: -11.68164) from Allium sativum L and Isovitexin, an example of flavone (rank score: 6LXT: -12.14922; 6YOR: -10.19443; 6YNQ: -12.60603) from Pimpinella anisumL were the most potent ligands against SP and M^pro of SARS-CoV-2. Whereas, Astragalin from Crocus sativus L.; Rutin from Illicium verum, Oxyguttiferone from Garcinia cambogia; Scopolin from Apium graveolens L, Luteolin from Salvia officinalis, Emodin, Aloe-emodin from Cinnamomum zeylanicium and Apigenin from Allium sativum L showed better inhibition against M^pro than SP of SARS-CoV-2. The amino acid residues like SER, LYS, ASP and TYR were found playing important role in protein-ligand interactions via hydrogen bonding and Vander Waals forces.

Conclusion: Optimal use of traditional spices in our daily meals may help fight against COVID-19. This study also paves the path for herbal drug formulation against SARS-CoV-2 after wet lab validation.

Keywords: 6LXT; 6YNQ; 6YOR; COVID-19; isovitexin; myricetin; spices.; spike protein.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Antiviral Agents / pharmacology
COVID-19*
Computer Simulation
Humans
Molecular Docking Simulation
Molecular Dynamics Simulation
Pandemics
Protease Inhibitors
SARS-CoV-2
Spices

Substances

Antiviral Agents
Protease Inhibitors

Grants and funding

2/3/13/1440 (COV-47)/All India Council for Technical Education (AICTE), Government of India