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Coronaviruses

Editor-in-Chief

ISSN (Print): 2666-7967
ISSN (Online): 2666-7975

Research Article

In Silico Insight into the Inhibitory Effects of Active Antidiabetic Compounds from Medicinal Plants Against SARS-CoV-2 Replication and Posttranslational Modification

Author(s): Habibu Tijjani*, Adamu Idris Matinja, Ahmed Olatunde, Maryam Haladu Zangoma, Abubakar Mohammed, Muhammad Akram, Akinwunmi Oluwaseun Adeoye and Hamza Lawal

Volume 3, Issue 2, 2022

Published on: 18 January, 2021

Article ID: e180121190410 Pages: 10

DOI: 10.2174/2666796702666210118154948

Price: $65

Abstract

Background: The recent reemergence of the coronavirus (COVID-19) caused by the virus severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) has prompted the search for effective treatments in the forms of drugs and vaccines.

Aim: In this regard, we performed an in silico study on 39 active antidiabetic compounds of medicinal plants to provide insight into their possible inhibitory potentials against SARS-CoV-2 replications and post-translational modifications. Top 12 active antidiabetic compounds with potential for dual inhibition of the replications and post-translational modifications of SARS-CoV-2 were analyzed.

Results: Boswellic acids, celastrol, rutin, sanguinarine, silymarin, and withanolides expressed binding energy for 3-chymotrypsin-like protease (3CLpro) (-8.0 to -8.9 Kcal/mol), papain-like protease (PLpro) (-9.1 to -10.2 Kcal/mol), and RNA-dependent RNA polymerase (RdRp) (-8.5 to -9.1 Kcal/- mol) which were higher than the reference drugs (Lopinavir and Remdesivir) used in this study. Sanguinarine, silymarin, and withanolides are the most druggable phytochemicals among other phytochemicals as they follow Lipinski’s rule of five analyses. Sanguinarine, silymarin, and withanolides expressed moderate solubility with no hepatotoxicity, while silymarin and withanolides could not permeate the blood-brain barrier and showed no Salmonella typhimurium reverse mutation assay (AMES) toxicity, unlike sanguinarine from the predictive absorption, distribution, metabolism, elimination, and toxicity (ADMET) studies.

Conclusion: Sanguinarine, silymarin, and withanolides could be proposed for further experimental studies for their development as possible phytotherapy for the COVID-19 pandemic.

Keywords: Coronavirus, antidiabetic compounds, SARS-CoV-2, replication, post-translational modification, phytotherapy.

Graphical Abstract

[1]
Orhan IE, Senol Deniz FS. Natural products as potential leads against coronaviruses: Could they be encouraging structural models against SARS-CoV-2? Nat Prod Bioprospect 2020; 10(4): 171-86.
[http://dx.doi.org/10.1007/s13659-020-00250-4] [PMID: 32529545]
[2]
Vellingiri B, Jayaramayya K, Iyer M, et al. COVID-19: A promising cure for the global panic. Sci Total Environ 2020; 725: 138277.
[http://dx.doi.org/10.1016/j.scitotenv.2020.138277] [PMID: 32278175]
[3]
Jo S, Kim S, Shin DH, Kim MS. Inhibition of SARS-CoV 3CL protease by flavonoids. J Enzyme Inhib Med Chem 2020; 35(1): 145-51.
[http://dx.doi.org/10.1080/14756366.2019.1690480] [PMID: 31724441]
[4]
Wu C, Liu Y, Yang Y, Zhang P, Zhong W, Wang Yali. Analysis of therapeutic targets for SARS-CoV-2 and discovery of potential drugs by computational methods. Acta Pharmaceutica Sinica B 2020; 10(5): 766-88.
[5]
Peterson LE. COVID-19 and flavonoids: In Silico molecular dynamics docking to the active catalytic site of SARS-CoV and SARS-CoV-2 main protease. NXG Logoic LLC 2020.
[6]
Salehi B, Ata A, V Anil Kumar N, et al. Atta-ur-Rahman. Antidiabetic potential of medicinal plants and their active components. Biomolecules 2019; 9(10): 551.
[http://dx.doi.org/10.3390/biom9100551] [PMID: 31575072]
[7]
Islam M T, Sarkar C, El-Kersh D M, et al. Natural products and their derivatives against coronavirus: A review of the non-clinical and pre-clinical data Phytotherapy Research. 2020; 1-22.
[http://dx.doi.org/10.1002/ptr.6700]
[8]
Montagnani A, Pieralli F, Gnerre P, et al. Diabetes and COVID-19: Experience from the frontline of internal medicine wards in Italy. Diabetes Res Clin Pract 2020; 167: 108335.
[http://dx.doi.org/10.1016/j.diabres.2020.108335] [PMID: 32687955]
[9]
Damián-Medina K, Salinas-Moreno Y, Milenkovic D, et al. In silico analysis of antidiabetic potential of phenolic compounds from blue corn (Zea mays L.) and black bean (Phaseolus vulgaris L.). Heliyon 2020; 6(3): e03632.
[http://dx.doi.org/10.1016/j.heliyon.2020.e03632] [PMID: 32258479]
[10]
Astuti I. Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2): An overview of viral structure and host response. Diabetes & Metabolic Syndrome: Clinical Research & Reviews 14 2020; 407-12.
[11]
Kim S, Chen J, Cheng T, et al. PubChem 2019 update: Improved access to chemical data. Nucleic Acids Res 2019; 47(D1): D1102-9.
[http://dx.doi.org/10.1093/nar/gky1033] [PMID: 30371825]
[12]
O’Boyle NM, Banck M, James CA, Morley C, Vandermeersch T, Hutchison GR. Open Babel: An open chemical toolbox. J Cheminform 2011; 3(10): 33.
[http://dx.doi.org/10.1186/1758-2946-3-33] [PMID: 21982300]
[13]
Berman HM, Westbrook J, Feng Z, et al. The protein data bank. Nucleic Acids Res 2000; 28(1): 235-42.
[http://dx.doi.org/10.1093/nar/28.1.235] [PMID: 10592235]
[14]
Trott O, Olson AJ. AutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading. J Comput Chem 2010; 31(2): 455-61.
[PMID: 19499576]
[15]
Daina A, Michielin O, Zoete V. SwissADME: A free web tool to evaluate pharmacokinetics, drug-likeness and medicinal chemistry friendliness of small molecules. Sci Rep 2017; 7: 42717.
[http://dx.doi.org/10.1038/srep42717] [PMID: 28256516]
[16]
Lipinski CA, Lombardo F, Dominy BW, Feeney PJ. Experimental and computational approaches to estimate solubility and permeability in drug discovery and development settings. Adv Drug Deliv Rev 2001; 46(1-3): 3-26.
[http://dx.doi.org/10.1016/S0169-409X(00)00129-0] [PMID: 11259830]
[17]
Adeoye AO, Oso BJ, Olaoye IF, Tijjani H, Adebayo AI. Repurposing of chloroquine and some clinically approved antiviral drugs as effective therapeutics to prevent cellular entry and replication of coronavirus. J Biomol Struct Dyn 2020; 39(10): 3469-79.
[http://dx.doi.org/10.1080/07391102.2020.1765876] [PMID: 32375574]
[18]
Elengoe A, Naser MA, Hamdan S, Hamdan S. Modeling and docking studies on novel mutants (K71L and T204V) of the ATPase domain of human heat shock 70 kDa protein 1. Int J Mol Sci 2014; 15(4): 6797-814.
[http://dx.doi.org/10.3390/ijms15046797] [PMID: 24758925]
[19]
Ferreira de Freitas R, Schapira M. A systematic analysis of atomic protein-ligand interactions in the PDB. MedChemComm 2017; 8(10): 1970-81.
[http://dx.doi.org/10.1039/C7MD00381A] [PMID: 29308120]
[20]
Shah B, Modi P, Sagar SR. In silico studies on therapeutic agents for COVID-19: Drug repurposing approach. Life Sci 2020; 252: 117652.
[http://dx.doi.org/10.1016/j.lfs.2020.117652] [PMID: 32278693]
[21]
Di L, Kerns EH. Drug-like properties: Concepts, structure design and methods from ADME to toxicity optimization. Academic press 2015.
[22]
Mirza MU, Froeyen M. Structural elucidation of SARS-CoV-2 vital proteins: Computational methods reveal potential drug candidates against main protease, Nsp12 polymerase and Nsp13 helicase. J Pharm Anal 2020; 10(4): 320-8.
[http://dx.doi.org/10.1016/j.jpha.2020.04.008] [PMID: 32346490]
[23]
ul Qamar MT, Alqahtani SM, Alamri MA, Chen L-L. Structural basis of SARS-CoV-2 3CLpro and anti-COVID-19 drug discovery from medicinal plants. J Pharm Anal 2020; 10(4): 313-9.
[http://dx.doi.org/10.1016/j.jpha.2020.03.009] [PMID: 32296570] [PMCID: PMC7156227]
[24]
Ioannides C. Pharmacokinetic interactions between herbal remedies and medicinal drugs. Xenobiotica 2002; 32(6): 451-78.
[http://dx.doi.org/10.1080/00498250210124147] [PMID: 12160480]
[25]
Vang O, Jensen M B, Autrup H. Induction of cytochrome P-450IA1, IA2, IIB1 and IIE1 by broccoli in rat liver and colon. Chemico-Biological Interactions 1991; 78: 85-96.
[26]
Stocks M. Introduction to biological and small molecule drug research and development: Chapter 3.The small molecule drug discovery process–from target selection to candidate selection. Elsevier Inc. 2013.
[27]
Maurya SK, Maurya AK, Mishra N, Siddique HR. Virtual screening, ADME/T, and binding free energy analysis of anti-viral, anti-protease, and anti-infectious compounds against NSP10/NSP16 methyltransferase and main protease of SARS CoV-2. J Recept Signal Transduct 2020.
[28]
Jin Z, Du X, Xu Y, et al. Structure of Mpro from SARS-CoV-2 and discovery of its inhibitors. Nature 2020; 582(7811): 289-93.
[http://dx.doi.org/10.1038/s41586-020-2223-y] [PMID: 32272481]
[29]
Fung TS, Liu DX. Post-translational modifications of coronavirus proteins: Roles and function. Future Virol 2018; 13(6): 405-30.
[http://dx.doi.org/10.2217/fvl-2018-0008] [PMID: 32201497]
[30]
Uslupehlivan M, Sener E. Computational analysis of SARS-CoV-2 S1 protein O-glycosylation and phosphorylation modifications and identifying potential target positions against CD209L-mannose interaction to inhibit initial binding of the virus. 2020.
[31]
Bharti VK, Malik JK, Gupta RC. Ashwagandha: Multiple health benefits Nutraceuticals. Elsevier 2016; pp. 717-33.
[32]
Wal A, Wal P, Rai A, Tiwari R, Prajapati SK. Adaptogens with a special emphasis on Withania somnifera and Rhodiola rosea nutrition and enhanced sports performance. Elsevier 2019; pp. 407-18.
[33]
Machajewski TD, Gao Z, Rotella DP. Inhibitors of molecular chaperones as therapeutic agents. Royal Society of Chemistry 2013.
[http://dx.doi.org/10.1039/9781849739689]
[34]
Kamal A, Boehm MF, Burrows FJ. Therapeutic and diagnostic implications of Hsp90 activation. Trends Mol Med 2004; 10(6): 283-90.
[http://dx.doi.org/10.1016/j.molmed.2004.04.006] [PMID: 15177193]
[35]
Surai PF. Silymarin as a natural antioxidant: An overview of the current evidence and perspectives. Antioxidants 2015; 4(1): 204-47.
[http://dx.doi.org/10.3390/antiox4010204] [PMID: 26785346]
[36]
Liu C-H, Jassey A, Hsu H-Y, Lin L-T. Antiviral activities of silymarin and derivatives. Molecules 2019; 24(8): 1552.
[http://dx.doi.org/10.3390/molecules24081552] [PMID: 31010179]
[37]
Latha N, Pandit M. In silico studies reveal potential antiviral activity of phytochemicals from medicinal plants for the treatment of COVID-19 infection. 2020.

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