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Activities of tetrahydrobenzothiazole derivative compounds against Nipah virus by HF method and Molecular docking calculations

Year 2025, Volume: 9 Issue: 5, 26 - 39

Abstract

In this study, the electronic, biological and pharmacokinetic properties of eight tetrahydrobenzothiazole derivative molecules were investigated to evaluate their potential inhibitory activity against the Nipah virus. Quantum chemical calculations were performed at the HF/6-31++G(d,p) level using Gaussian 09 to determine parameters such as HOMO-LUMO energies, energy gap (ΔE), chemical hardness (η), softness (ε), electronegativity (χ), dipole moment, and total energy. Molecular docking simulations were conducted using the Schrödinger Maestro software against the viral proteins 2VSM and 4CO6, and their interactions were analyzed in terms of Glide scores, binding energies, and key molecular interactions. Additionally, ADME/T predictions were performed using the QikProp module to evaluate the drug-likeness and pharmacokinetic profiles of the compounds. The results showed that molecule 6 exhibited the highest stability and electrophilicity, while molecule 8 demonstrated the greatest reactivity and polarity. Molecule 3 was determined to have the most favorable ADME profile, including high permeability and oral absorption. These findings suggest that several of the studied compounds may serve as promising candidates for further antiviral drug development against the Nipah virus.

Ethical Statement

Bu çalışmanın hazırlanma sürecinde bilimsel ve etik ilkelere uyulduğu ve yararlanılan tüm çalışmaların kaynakçada belirtildiği beyan olunur /It is declared that scientific and ethical principles have been followed while carrying out and writing this study and that all the sources used have been properly cited.

References

  • [1] Ang, B. S., Lim, T. C., & Wang, L. Nipah virus infection. Journal of Clinical Microbiology, 56(6) (2018), 10-1128.
  • [2] Chua, K. B. Nipah virus outbreak in Malaysia. Journal of Clinical Virology, 26(3) (2003), 265-275.
  • [3] Harcourt, B. H., Lowe, L., Tamin, A., Liu, X., Bankamp, B., Bowden, N., ... & Rota, P. A. Genetic characterization of Nipah virus, Bangladesh, 2004. Emerging Infectious Diseases, 11(10) (2005), 1594.
  • [4] Li, Y., Liu, D., Wang, Y., Su, W., Liu, G., & Dong, W. The importance of glycans of viral and host proteins in enveloped virus infection. Frontiers in Immunology, 12 (2021), 638573.
  • [5] Choppin, P. W., & Scheid, A. The role of viral glycoproteins in adsorption, penetration, and pathogenicity of viruses. Reviews of Infectious Diseases, 2(1) (1980), 40-61.
  • [6] Sun, B., Jia, L., Liang, B., Chen, Q., & Liu, D. Phylogeography, transmission, and viral proteins of Nipah virus. Virologica Sinica, 33(5) (2018), 385-393.
  • [7] Sharma, V., Kaushik, S., Kumar, R., Yadav, J. P., & Kaushik, S. Emerging trends of Nipah virus: A review. Reviews in Medical Virology, 29(1) (2019), e2010.
  • [8] Harcourt, B. H., Tamin, A., Halpin, K., Ksiazek, T. G., Rollin, P. E., Bellini, W. J., & Rota, P. A. Molecular characterization of the polymerase gene and genomic termini of Nipah virus. Virology, 287(1) (2001), 192-201.
  • [9] Yalazan, H., Koç, D., Kose, F. A., Akgül, M. İ., Fandaklı, S., Tüzün, B., ... & Kantekin, H. Chalcone-based schiff bases: Design, synthesis, structural characterization and biological effects. Journal of Molecular Structure, 1337 (2025), 142211.
  • [10] Hsu, V. P., Hossain, M. J., Parashar, U. D., Ali, M. M., Ksiazek, T. G., Kuzmin, I., ... & Breiman, R. F. Nipah virus encephalitis reemergence, Bangladesh. Emerging Infectious Diseases, 10(12) (2004), 2082.
  • [11] Hughes, J. M., Wilson, M. E., Luby, S. P., Gurley, E. S., & Hossain, M. J. Transmission of human infection with Nipah virus. Clinical Infectious Diseases, 49(11) (2009), 1743-1748.
  • [12] Luby, S. P., Rahman, M., Hossain, M. J., Blum, L. S., Husain, M. M., Gurley, E., ... & Ksiazek, T. G. Foodborne transmission of Nipah virus, Bangladesh. Emerging Infectious Diseases, 12(12) (2006), 1888.
  • [13] Bonaparte, M. I., Dimitrov, A. S., Bossart, K. N., Crameri, G., Mungall, B. A., Bishop, K. A., ... & Broder, C. C. Ephrin-B2 ligand is a functional receptor for Hendra virus and Nipah virus. Proceedings of the National Academy of Sciences, 102(30) (2005), 10652-10657.
  • [14] Chua, K. B., Koh, C. L., Hooi, P. S., Wee, K. F., Khong, J. H., Chua, B. H., ... & Lam, S. K. Isolation of Nipah virus from Malaysian Island flying-foxes. Microbes and Infection, 4(2) (2002), 145-151.
  • [15] Chua, K. B., Bellini, W. J., Rota, P. A., Harcourt, B. H., Tamin, A., Lam, S. K., ... & Mahy, B. W. J. Nipah virus: a recently emergent deadly paramyxovirus. Science, 288(5470) (2000), 1432-1435.
  • [16] Sun, S., Zhao, W., Li, Y., Chi, Z., Fang, X., Wang, Q., ... & Luan, Y. Design, synthesis and antitumor activity evaluation of novel HDAC inhibitors with tetrahydrobenzothiazole as the skeleton. Bioorganic Chemistry, 108 (2021), 104652.
  • [17] Vautherin, D., & Brink, D. T. Hartree-Fock calculations with Skyrme's interaction. I. Spherical nuclei. Physical Review C, 5(3) (1972), 626.
  • [18] Bowden, T. A., Aricescu, A. R., Gilbert, R. J., Grimes, J. M., Jones, E. Y., & Stuart, D. I. Structural basis of Nipah and Hendra virus attachment to their cell-surface receptor ephrin-B2. Nature Structural & Molecular Biology, 15(6) (2008), 567-572.
  • [19] Yabukarski, F., Lawrence, P., Tarbouriech, N., Bourhis, J. M., Delaforge, E., Jensen, M. R., ... & Jamin, M. Structure of Nipah virus unassembled nucleoprotein in complex with its viral chaperone. Nature Structural & Molecular Biology, 21(9) (2014), 754-759.
  • [20] Dennington, R., Keith, T. A., & Millam, J. M. GaussView 6.0. Semichem Inc., Shawnee Mission, KS, USA, (2016).
  • [21] Frisch, M. J., Trucks, G. W., Schlegel, H. B., Scuseria, G. R., Robb, M. A., Cheeseman, J. R., ... & Fox, D. J. Gaussian 09, Revision D.01. Gaussian Inc., Wallingford, CT, USA, (2009).
  • [22] Allah, A. E. M. A., Mortada, S., Tüzün, B., Guerrab, W., Qostal, M., Mague, J. T., ... & Ramli, Y. Novel thiohydantoin derivatives: design, synthesis, spectroscopic characterization, crystal structure, SAR, DFT, molecular docking, pharmacological and toxicological activities. Journal of Molecular Structure, 1335 (2025), 141995.
  • [23] Dahmani, M., Titi, A., Kadri, S., ET-Touhami, A., Yahyi, A., Tüzün, B., ... & Warad, I. Synthesis of two new Sn (IV) carboxylate complexes: Crystal structures, density functional theory and Hirshfeld surface analysis computation, antibacterial, antifungal, and bioinformatics potential determination. Inorganic Chemistry Communications, (2025), 114683.
  • [24] Schrödinger Release 2022-4: Maestro. Schrödinger, LLC, New York, NY, USA, (2022).
  • [25] Schrödinger Release 2022-4: Protein Preparation Wizard; Epik; Impact; Prime. Schrödinger, LLC, New York, NY, USA, (2022).
  • [26] Schrödinger Release 2022-4: LigPrep. Schrödinger, LLC, New York, NY, USA, (2022).
  • [27] Shahzadi, I., Zahoor, A. F., Tüzün, B., Mansha, A., Anjum, M. N., Rasul, A., ... & Mojzych, M. Repositioning of acefylline as anti-cancer drug: Synthesis, anticancer and computational studies of azomethines derived from acefylline tethered 4-amino-3-mercapto-1,2,4-triazole. PLOS ONE, 17(12) (2022), e0278027.
  • [28] El Faydy, M., Lakhrissi, L., Dahaieh, N., Ounine, K., Tüzün, B., Chahboun, N., ... & Zarrouk, A. Synthesis, Biological Properties, and Molecular Docking Study of Novel 1,2,3-Triazole-8-quinolinol Hybrids. ACS Omega, 9(23) (2024), 25395–25409.
  • [29] Schrödinger Release 2022-4: QikProp. Schrödinger, LLC, New York, NY, USA, (2022).
  • [30] Gorgun, E., Ali, A., & Islam, M. S. Biocomposites of poly (lactic acid) and microcrystalline cellulose: influence of the coupling agent on thermomechanical and absorption characteristics. ACS Omega, 9(10) (2024), 11523-11533.
  • [31] Gürdaş Mazlum, S., & Lodos, D. Modelling of Rheological Behaviour of Persimmon Puree. Turkish Journal of Agriculture - Food Science and Technology, 13(2) (2025), 439–445.
  • [32] Medetalibeyoğlu, H., Atalay, A., Sağlamtaş, R., Manap, S., Ortaakarsu, A. B., Ekinci, E., ... & Tüzün, B. Synthesis, design, and cholinesterase inhibitory activity of novel 1,2,4-triazole Schiff bases: A combined experimental and computational approach. International Journal of Biological Macromolecules, 306 (2025), 141350.
  • [33] Tüzün, B., Agbektas, T., Naghiyev, F. N., Tas, A., Zontul, C., Ozum, U., ... & Mamedov, I. G. In vitro cytotoxicity, gene expression, bioinformatics, biochemical analysis, and in silico analysis of synthesized carbonitrile derivatives. Monatshefte für Chemie-Chemical Monthly, (2025), 1-22.
  • [34] Bouabbadi, A., Rbaa, M., Tüzün, B., Hmada, A., Dahmani, K., Kharbouch, O., ... & Harcharras, M. Novel 8-hydroxyquinoline compounds used to inhibit mild steel corrosion in the presence of hydrochloric acid 1.0 M: an experimental and theoretical electrochemical study. Canadian Metallurgical Quarterly, (2025), 1-18.
  • [35] Schrader, T., Khanifaev, J., & Perlt, E. Koopmans' theorem for acidic protons. Chemical Communications, 59(93) (2023), 13839-13842.
  • [36] Pearson, R. G. Hard and soft acids and bases. Journal of the American Chemical Society, 85(22) (1963), 3533-3539.
  • [37] Pearson, R. G. Hard and soft acids and bases. Journal of the American Chemical Society, 85(22) (1963), 3533-3539.
  • [38] Parr, R. G., & Chattaraj, P. K. Principle of maximum hardness. Journal of the American Chemical Society, 113(5) (1991), 1854-1855.
  • [39] Ayers, P. W. An elementary derivation of the hard/soft-acid/base principle. The Journal of Chemical Physics, 122(14) (2005).
  • [40] Phillips, J. C. Generalized Koopmans' Theorem. Physical Review, 123(2) (1961), 420.
  • [41] Güçlü, G., Tüzün, B., Uçar, E., Eruygur, N., Ataş, M., İnanır, M., ... & Coşge Şenkal, B. Phytochemical and Biological Activity Evaluation of Globularia orientalis L. Korean Journal of Chemical Engineering, (2025), 1-17.
  • [42] Tüzün, B., Agbektas, T., Naghiyev, F. N., Tas, A., Zontul, C., Ozum, U., ... & Mamedov, I. G. In vitro cytotoxicity, gene expression, bioinformatics, biochemical analysis, and in silico analysis of synthesized carbonitrile derivatives. Monatshefte für Chemie-Chemical Monthly, (2025), 1-22.
  • [43] Bouabbadi, A., Rbaa, M., Tüzün, B., Hmada, A., Dahmani, K., Kharbouch, O., ... & Harcharras, M. Novel 8-hydroxyquinoline compounds used to inhibit mild steel corrosion in the presence of hydrochloric acid 1.0 M: an experimental and theoretical electrochemical study. Canadian Metallurgical Quarterly, (2025), 1-18.
  • [44] Maliyakkal, N., Taslimi, P., Tüzün, B., Menadi, S., Cacan, E., Beeran, A. A., ... & Mathew, B. Cholinesterase Inhibition and Anticancer Properties of [4-(Benzyloxy)phenyl]{Methylidene}hydrazinylidene]-1,3-dihydro-2H-Indol-2-ones Using Swiss Target-guided Prediction. Current Computer-Aided Drug Design, (2025).
  • [45] Cevik, U. A., Ünver, H., Bostancı, H. E., Tüzün, B., Gedik, N. İ., & Kocyigit, Ü. M. New hydrazone derivatives: synthesis, characterization, carbonic anhydrase I-II enzyme inhibition, anticancer activity and in silico studies. Zeitschrift für Naturforschung C, (2025).
  • [46] Karatas, H., Kul, İ. B., Aydin, M., Tüzün, B., Taslimi, P., & Kokbudak, Z. Alzheimer’s Disease Drug Design by Synthesis, Characterization, Enzyme Inhibition, In Silico, SAR Analysis and MM-GBSA Analysis of Schiff Bases Derivatives. Korean Journal of Chemical Engineering, (2025), 1-19.
  • [47] Tüzün, B. Evaluation of cytotoxicity, chemical composition, antioxidant potential, apoptosis relationship, molecular docking, and MM-GBSA analysis of Rumex crispus leaf extracts. Journal of Molecular Structure, 1323 (2025), 140791.
  • [48] Akkus, M., Kirici, M., Poustforoosh, A., Erdogan, M. K., Gundogdu, R., Tüzün, B., & Taslimi, P. Phenolic Compounds: Investigating Their Anti-Carbonic Anhydrase, Anti-Cholinesterase, Anticancer, Anticholinergic, and Antiepileptic Properties Through Molecular Docking, MM-GBSA, and Dynamics Analyses. Korean Journal of Chemical Engineering, (2025), 1-20.
  • [49] Ullah, N., Alam, A., Tüzün, B., Rehman, N. U., Ayaz, M., Elhenawy, A. A., ... & Ahmad, M. Synthesis of novel thiazole derivatives containing 3-methylthiophene carbaldehyde as potent anti α-glucosidase agents: In vitro evaluation, molecular docking, dynamics, MM-GBSA, and DFT studies. Journal of Molecular Structure, 1321 (2025), 140070.
  • [50] Çiçek, S., Korkmaz, Y. B., Tüzün, B., Işik, S., Yilmaz, M. T., & Özoğul, F. A study on insecticidal activity of the fennel (Foeniculum vulgare) essential oil and its nanoemulsion against stored product pests and molecular docking evaluation. Industrial Crops and Products, 222 (2024), 119859.
  • [51] Kapancık, S., Çelik, M. S., Demiralp, M., Ünal, K., Çetinkaya, S., & Tüzün, B. Chemical composition, cytotoxicity, and molecular docking analyses of Thuja orientalis extracts. Journal of Molecular Structure, 1318 (2024), 139279.
  • [52] Manap, S., Medetalibeyoğlu, H., Kılıç, A., Karataş, O. F., Tüzün, B., Alkan, M., ... & Yüksek, H. Synthesis, molecular modeling investigation, molecular dynamic and ADME prediction of some novel Mannich bases derived from 1,2,4-triazole, and assessment of their anticancer activity. Journal of Biomolecular Structure and Dynamics, 42(21) (2024), 11916-11930.
  • [53] Myroslava, O., Poustforoosh, A., Inna, B., Parchenko, V., Tüzün, B., & Gutyj, B. Molecular descriptors and in silico studies of 4-((5-(decylthio)-4-methyl-4n-1,2,4-triazol-3-yl)methyl)morpholine as a potential drug for the treatment of fungal pathologies. Computational Biology and Chemistry, 113 (2024), 108206.
  • [54] Ganbarov, K., Huseynzada, A., Binate, G., Sayin, K., Sadikhova, N., Ismailov, V., ... & Algherbawi, A. Biological and in silico studies of methyl 2-(2-methoxy-2-oxoethyl)-4-methylfuran-3-carboxylate as a promising antimicrobial agent. Acta Scientiarum - Technology, 47(1) (2025).
  • [55] Prabha, K., Rajendran, S., Gnanamangai, B. M., Sayin, K., Prasad, K. R., & Tüzün, G. Synthesis of novel isostere analogues of naphthyridines using CuI catalyst: DFT computations (FMO, MEP), molecular docking and ADME analysis. Tetrahedron, 168 (2024), 134323.
  • [56] Huseynzada, A., Mori, M., Meneghetti, F., Israyilova, A., Tüzün, G., Sayin, K., ... & Abbasov, V. Synthesis, crystal structure, Hirshfeld surface, computational and antibacterial studies of a 9-phenanthrenecarboxaldehyde-based thiodihydropyrimidine derivative. Journal of Molecular Structure, 1267 (2022), 133571.
  • [57] Kafa, A. H. T., Tüzün, G., Güney, E., Aslan, R., Sayın, K., Tüzün, B., & Ataseven, H. Synthesis, computational analyses, antibacterial and antibiofilm properties of nicotinamide derivatives. Structural Chemistry, 33(4) (2022), 1189-1197.
  • [58] Yildiz, H., Tüzün, G., & Erbayraktar, E. Sarı Kantoron (Hypericum perforatum) Bitkisinin Antioksidan ve Antimikrobiyal Özellikleri Üzerine Bir Araştırma. ISPEC Journal of Science Institute, 1(1) (2022), 27-32.
  • [59] Lipinski, C. A. Lead-and drug-like compounds: the rule-of-five revolution. Drug Discovery Today: Technologies, 1(4) (2004), 337-341.
  • [60] Lipinski, C. A., Lombardo, F., Dominy, B. W., & Feeney, P. J. Experimental and computational approaches to estimate solubility and permeability in drug discovery and development settings. Advanced Drug Delivery Reviews, 23 (1997), 3-25.
  • [61] Jorgensen, W. J., & Duffy, E. M. Prediction of drug solubility from structure. Advanced Drug Delivery Reviews, 54(3) (2002), 355-366.
There are 61 citations in total.

Details

Primary Language English
Subjects Molecular Imaging, Physical Chemistry (Other)
Journal Section Research Article
Authors

Gamze Tüzün 0000-0002-5876-2046

Early Pub Date June 23, 2025
Publication Date
Submission Date May 28, 2025
Acceptance Date June 2, 2025
Published in Issue Year 2025 Volume: 9 Issue: 5

Cite

APA Tüzün, G. (2025). Activities of tetrahydrobenzothiazole derivative compounds against Nipah virus by HF method and Molecular docking calculations. Turkish Computational and Theoretical Chemistry, 9(5), 26-39.
AMA Tüzün G. Activities of tetrahydrobenzothiazole derivative compounds against Nipah virus by HF method and Molecular docking calculations. Turkish Comp Theo Chem (TC&TC). June 2025;9(5):26-39.
Chicago Tüzün, Gamze. “Activities of Tetrahydrobenzothiazole Derivative Compounds Against Nipah Virus by HF Method and Molecular Docking Calculations”. Turkish Computational and Theoretical Chemistry 9, no. 5 (June 2025): 26-39.
EndNote Tüzün G (June 1, 2025) Activities of tetrahydrobenzothiazole derivative compounds against Nipah virus by HF method and Molecular docking calculations. Turkish Computational and Theoretical Chemistry 9 5 26–39.
IEEE G. Tüzün, “Activities of tetrahydrobenzothiazole derivative compounds against Nipah virus by HF method and Molecular docking calculations”, Turkish Comp Theo Chem (TC&TC), vol. 9, no. 5, pp. 26–39, 2025.
ISNAD Tüzün, Gamze. “Activities of Tetrahydrobenzothiazole Derivative Compounds Against Nipah Virus by HF Method and Molecular Docking Calculations”. Turkish Computational and Theoretical Chemistry 9/5 (June 2025), 26-39.
JAMA Tüzün G. Activities of tetrahydrobenzothiazole derivative compounds against Nipah virus by HF method and Molecular docking calculations. Turkish Comp Theo Chem (TC&TC). 2025;9:26–39.
MLA Tüzün, Gamze. “Activities of Tetrahydrobenzothiazole Derivative Compounds Against Nipah Virus by HF Method and Molecular Docking Calculations”. Turkish Computational and Theoretical Chemistry, vol. 9, no. 5, 2025, pp. 26-39.
Vancouver Tüzün G. Activities of tetrahydrobenzothiazole derivative compounds against Nipah virus by HF method and Molecular docking calculations. Turkish Comp Theo Chem (TC&TC). 2025;9(5):26-39.

Journal Full Title: Turkish Computational and Theoretical Chemistry


Journal Abbreviated Title: Turkish Comp Theo Chem (TC&TC)