Generic placeholder image

Letters in Organic Chemistry

Editor-in-Chief

ISSN (Print): 1570-1786
ISSN (Online): 1875-6255

Research Article

In-silico Identification of Dexamethasone-similar Compounds Against SARS-Cov-2 Spike Protein: A Drug Repurposing Approach

Author(s): Yamini Pathak, Vishwas Tripathi*, Ihosvany Camps, Faizan Abul Qais and Amaresh Mishra

Volume 21, Issue 5, 2024

Published on: 12 October, 2023

Page: [414 - 424] Pages: 11

DOI: 10.2174/1570178620666230811122313

Price: $65

Abstract

To identify potential drug candidates for the treatment of COVID-19 using a computational method. The recent pandemic of COVID-19 is observed as not less than a natural calamity of humankind and raised serious concerns for its immediate management. The continued spread of coronavirus disease across the globe poses a significant threat to human health. Out of this, the application of Dexamethasone has been correlated with reduced mortality in COVID-19 cases. This study sheds new light on the pharmacological potential of Dexamethasone and similar compounds in mitigating SARSCoV2 infection.

In this study, we explored Dexamethasone-similar compounds, which can modulate the binding of SARS-CoV-2 spike protein to the host and TH17 programming in the host using a computer-aided drug repurposing method. The docking studies indicate that Desoximetasone can bind to the spike proteins of SARS-CoV-2, which are crucial for viral attachment and entry into host cells. By competing with these spike proteins, Desoximetasone may interfere with the virus's ability to attach to and enter host cells, potentially inhibiting viral replication and spread. The results from molecular dynamic simulation analysis further support this notion by demonstrating that Desoximetasone has a strong interaction with the binding sites of the spike protein. Experimental validation through in vitro studies and clinical trials is needed to evaluate its potential as a treatment option for COVID-19. Together, these findings revealed the underlying mechanism of how Desoximetasone can influence the fate of the virus in the host and advocated its anti-viral potential.

Graphical Abstract

[1]
World Health Organization. Novel Coronavirus(2019-nCoV); WHO Bull, 2020.
[2]
CDC. Infection Control Guidance for Healthcare Professionals about Coronavirus (COVID-19); Centers for Disease Control and Prevention, 2020.
[3]
Tian, X.; Li, C.; Huang, A.; Xia, S.; Lu, S.; Shi, Z.; Lu, L.; Jiang, S.; Yang, Z.; Wu, Y.; Ying, T. Emerg. Microbes Infect., 2020, 9(1), 382-385.
[http://dx.doi.org/10.1080/22221751.2020.1729069] [PMID: 32065055]
[4]
Waterhouse, A.; Bertoni, M.; Bienert, S.; Studer, G.; Tauriello, G.; Gumienny, R.; Heer, F.T.; de Beer, T.A.P.; Rempfer, C.; Bordoli, L.; Lepore, R.; Schwede, T. Nucleic Acids Res., 2018, 46(W1), W296-W303.
[http://dx.doi.org/10.1093/nar/gky427] [PMID: 29788355]
[5]
Elfiky, A.A.; Mahdy, S.M.; Elshemey, W.M. J. Med. Virol., 2017, 89(6), 1040-1047.
[http://dx.doi.org/10.1002/jmv.24736] [PMID: 27864902]
[6]
Ibrahim, I.M.; Abdelmalek, D.H.; Elfiky, A.A. Life Sci., 2019, 226, 156-163.
[http://dx.doi.org/10.1016/j.lfs.2019.04.022] [PMID: 30978349]
[7]
Gui, M.; Song, W.; Zhou, H.; Xu, J.; Chen, S.; Xiang, Y.; Wang, X. Cell Res., 2017, 27(1), 119-129.
[http://dx.doi.org/10.1038/cr.2016.152] [PMID: 28008928]
[8]
Walls, A.C.; Tortorici, M.A.; Snijder, J.; Xiong, X.; Bosch, B.J.; Rey, F.A.; Veesler, D. Proc. Natl. Acad. Sci. USA, 2017, 114(42), 11157-11162.
[http://dx.doi.org/10.1073/pnas.1708727114] [PMID: 29073020]
[9]
Xia, S.; Zhu, Y.; Liu, M.; Lan, Q.; Xu, W.; Wu, Y.; Ying, T.; Liu, S.; Shi, Z.; Jiang, S.; Lu, L. Cell. Mol. Immunol., 2020, 17(7), 765-767.
[http://dx.doi.org/10.1038/s41423-020-0374-2] [PMID: 32047258]
[10]
Coperchini, F.; Chiovato, L.; Croce, L.; Magri, F.; Rotondi, M. Cytokine Growth Factor Rev., 2020, 53, 25-32.
[http://dx.doi.org/10.1016/j.cytogfr.2020.05.003] [PMID: 32446778]
[11]
Chavda, V.P.; Raval, N.; Sheta, S.; Vora, L.K.; Elrashdy, F.; Redwan, E.M.; Uversky, V.N.; Ertas, Y.N. Front. Immunol., 2023, 14, 1064459.
[http://dx.doi.org/10.3389/fimmu.2023.1064459] [PMID: 37153613]
[12]
Ragab, D; Salah Eldin, H; Taeimah, M; Khattab, R; Salem, R Front. Immunol., 2020, 14, 1064459.
[13]
Roberts, M. Coronavirus: Dexamethasone proves first life-saving drug; BBC News, 2020.
[14]
Burns, C.M. Rheum. Dis. Clin. North Am., 2016, 42(1), 1-14.
[http://dx.doi.org/10.1016/j.rdc.2015.08.001] [PMID: 26611547]
[15]
Abdelli, I.; Hassani, F.; Bekkel Brikci, S.; Ghalem, S. J. Biomol. Struct. Dyn., 2020, 1-14.
[http://dx.doi.org/10.1080/07391102.2020.1763199] [PMID: 32362217]
[16]
Tai, W.; He, L.; Zhang, X.; Pu, J.; Voronin, D.; Jiang, S.; Zhou, Y.; Du, L. Cell. Mol. Immunol., 2020, 17(6), 613-620.
[http://dx.doi.org/10.1038/s41423-020-0400-4] [PMID: 32203189]
[17]
Wahedi, H.M.; Ahmad, S.; Abbasi, S.W. J. Biomol. Struct. Dyn., 2020, 1-10.
[http://dx.doi.org/10.1080/07391102.2020.1762743] [PMID: 32345140]
[18]
Kar, P.; Sharma, N.R.; Singh, B.; Sen, A.; Roy, A. J. Biomol. Struct. Dyn., 2020, 39(13), 4774-4785.
[PMID: 32552595]
[19]
Andersen, K.G.; Rambaut, A.; Lipkin, W.I.; Holmes, E.C.; Garry, R.F. Nat. Med., 2020, 26(4), 450-452.
[http://dx.doi.org/10.1038/s41591-020-0820-9] [PMID: 32284615]
[20]
Wan, Y.; Shang, J.; Graham, R.; Baric, R.S.; Li, F. J. Virol., 2020, 94(7), e00127-e20.
[http://dx.doi.org/10.1128/JVI.00127-20] [PMID: 31996437]
[21]
Lan, J.; Ge, J.; Yu, J.; Shan, S.; Zhou, H.; Fan, S.; Zhang, Q.; Shi, X.; Wang, Q.; Zhang, L.; Wang, X. Nature, 2020, 581(7807), 215-220.
[http://dx.doi.org/10.1038/s41586-020-2180-5] [PMID: 32225176]
[22]
Onguéné, P.A.; Simoben, C.V.; Fotso, G.W.; Andrae-Marobela, K.; Khalid, S.A.; Ngadjui, B.T.; Mbaze, L.M.; Ntie-Kang, F. Comput. Biol. Chem., 2018, 72, 136-149.
[http://dx.doi.org/10.1016/j.compbiolchem.2017.12.002] [PMID: 29277258]
[23]
Patil, R.; Das, S.; Stanley, A.; Yadav, L.; Sudhakar, A.; Varma, A.K. PLoS One, 2010, 5(8), e12029.
[http://dx.doi.org/10.1371/journal.pone.0012029] [PMID: 20808434]
[24]
Schaeffer, L. In: Pract Med Chem, 4th ed; , 2008, pp. 359-378.
[25]
Rédei, G.P. Encyclopedia of Genetics Genomics, Proteomics Informatics; Springer, 2008.
[http://dx.doi.org/10.1007/978-1-4020-6754-9_13806]
[26]
Dallakyan, S.; Olson, A.J. Methods Mol. Biol., 2015, 1263, 243-250.
[http://dx.doi.org/10.1007/978-1-4939-2269-7_19] [PMID: 25618350]
[27]
Zoete, V.; Daina, A.; Bovigny, C.; Michielin, O. J. Chem. Inf. Model., 2016, 56(8), 1399-1404.
[http://dx.doi.org/10.1021/acs.jcim.6b00174] [PMID: 27391578]
[28]
Protein Data Bank. RCSB PDB: Homepage. Rcsb Pdb. 2019.
[29]
Jiang, S.J.; Tsai, P.I.; Peng, S.Y.; Chang, C.C.; Chung, Y.; Tsao, H.H.; Huang, H.T.; Chen, S.Y.; Hsu, H. J. Sci. Rep., 2019, 9(1), 2317.
[http://dx.doi.org/10.1038/s41598-018-36492-z] [PMID: 30783144]
[30]
Wu, J.; Qu, Y.; Deng, J.X.; Liang, W.Y.; Jiang, Z.L.; Lai, R. Biomed. Res., 2017.
[31]
Kaplan, W.; Littlejohn, T.G. Brief. Bioinform., 2001, 2(2), 195-197.
[http://dx.doi.org/10.1093/bib/2.2.195] [PMID: 11465736]
[32]
DeLano, W.L. The PyMOL Molecular Graphics System, Version 2.3; Schrödinger LLC, 2020.
[33]
Visualizer DS. v4. 0.100. 13345. In: Accelrys Software Inc. , 2005.
[34]
Kadam, R.U.; Wilson, I.A. Proc. Natl. Acad. Sci. USA, 2017, 114(2), 206-214.
[http://dx.doi.org/10.1073/pnas.1617020114] [PMID: 28003465]
[35]
Liu, J.; Cao, R.; Xu, M.; Wang, X.; Zhang, H.; Hu, H.; Li, Y.; Hu, Z.; Zhong, W.; Wang, M. Cell Discov., 2020, 6(1), 16.
[http://dx.doi.org/10.1038/s41421-020-0156-0] [PMID: 32194981]
[36]
Pires, D.E.V.; Blundell, T.L.; Ascher, D.B. J. Med. Chem., 2015, 58(9), 4066-4072.
[http://dx.doi.org/10.1021/acs.jmedchem.5b00104] [PMID: 25860834]
[37]
Bowers, K.J.; Chow, E.; Xu, H.; Dror, R.O.; Eastwood, M.P.; Gregersen, B.A. Proc 2006 ACM/IEEE Conf Supercomput SC’06, 2006Tampa, FL, USA, pp. 43-43.
[http://dx.doi.org/10.1109/SC.2006.54]
[38]
Harder, E.; Damm, W.; Maple, J.; Wu, C.; Reboul, M.; Xiang, J.Y.; Wang, L.; Lupyan, D.; Dahlgren, M.K.; Knight, J.L.; Kaus, J.W.; Cerutti, D.S.; Krilov, G.; Jorgensen, W.L.; Abel, R.; Friesner, R.A. J. Chem. Theory Comput., 2016, 12(1), 281-296.
[http://dx.doi.org/10.1021/acs.jctc.5b00864] [PMID: 26584231]
[39]
Jin, Z.; Wang, Y.; Yu, X.F.; Tan, Q.Q.; Liang, S.S.; Li, T.; Zhang, H.; Shaw, P.C.; Wang, J.; Hu, C. Comput. Biol. Chem., 2020, 85, 107241.
[http://dx.doi.org/10.1016/j.compbiolchem.2020.107241] [PMID: 32120300]
[40]
Sharma, A.; Tiwari, V.; Sowdhamini, R. J. Biosci., 2020, 45(1), 100.
[http://dx.doi.org/10.1007/s12038-020-00069-8]

Rights & Permissions Print Cite
© 2024 Bentham Science Publishers | Privacy Policy