IDENTIFICATION OF POTENTIAL ACTIVITY OF VOLATILE COMPOUNDS DERIVED FROM POGOSTEMON CABLIN BENTH AS ANTIVIRAL OF SARS-COV-2

YULANDA ANTONIUS; JEREMI ONGKO; POPY HARTATIE HARDJO

doi:10.22159/ijap.2023v15i1.43571

Authors

YULANDA ANTONIUS Department of Biology, Faculty of Biotechnology, University of Surabaya, Indonesia https://orcid.org/0000-0002-4950-8134
JEREMI ONGKO Department of Biology, Faculty of Biotechnology, University of Surabaya, Indonesia
POPY HARTATIE HARDJO Department of Biology, Faculty of Biotechnology, University of Surabaya, Indonesia https://orcid.org/0000-0002-9064-8470

DOI:

https://doi.org/10.22159/ijap.2023v15i1.43571

Keywords:

Inhibitor compound, Glycoprotein, Secondary metabolite, Viral infection

Abstract

Objective: Coronavirus disease-19 (COVID-19) is global pandemic which caused by SARS-CoV-2 infection. Mechanism of infection is initiated by attachment between viral glycoprotein with ACE2 receptor in human cells. Furthermore, Indonesia had a massive diversity of plants with a high potency of drugs, such as Pogostemon cablin Benth. In brief, it contained of various volatile compounds with many therapeutic properties. Therefore, this research aimed to identify the ability of volatile compounds from Pogostemon cablin Benth as a potential inhibitor of SARS-CoV-2 spike glycoprotein.

Methods: SMILE notation of 22 volatile compounds of Pogostemon cablin Benth were collected from PubChem and the 3D structure of SARS-CoV-2 glycoprotein (PDB ID: 6VXX) was obtained from PDB database. Simulation of interaction between volatile compound and glycoprotein was conducted by using Pyrx molecular docking. Moreover, the complex of compounds-glycoprotein was depicted by using Chimera and the amino acid residue was analysed by using LigPlot. Selected potential compounds were identified for biological activity prediction, drug-likeness, and toxicity analysis.

Results: Analysis showed that among those volatile compounds, only caryophyllene oxide (-6.3 kcal/mol) naturally bind specific into RBD site as compared to the control. Furthermore, it had comparable hydrogen and hydrophobic interactions with glycoprotein. Further analysis showed it has strong potential biological function for antiviral with low toxicity.

Conclusion: Caryophyllene oxide is considered as promising candidate compounds that inhibited viral infection through SARS-CoV-2 glycoprotein.

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