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In-silico investigation of alpha-bisabolol and derivatives as inhibitors of bcl-2 family proteins for targeting glioblastoma

Year 2025, Volume: 12 Issue: 1, 1 - 15

Abstract

Glioblastoma is one of the most common and destructive types of tumors, with an increasing number around the world. Alpha-bisabolol is a plant secondary metabolite with discovered anticancer activity, which can also be considered a potential treatment for glioblastoma. In silico investigations can provide adequate information for understanding the roles of alpha-bisabolol compounds in glioblastoma. For this purpose, computational drug design procedures were applied to investigate the anti-glioblastoma biotherapeutic potential of alpha-bisabolol compounds. In this study, bcl-2 family proteins' inhibitory activity of alpha-bisabolol compounds and their toxicity properties were investigated by molecular docking studies. Toxicity properties were evaluated by the prediction tools as, CarcinoPred for carcinogenicity and LAZAR for mutagenicity, pkCSM, and SwissADME for absorption, distribution, metabolism, excretion and toxicity (ADMET) analysis and BOILED-Egg model, PASS prediction to analyze biological functions and druggability, DruLiTo program to compute the drug likeness property and QSAR Toolbox for QSAR modeling. The results reveal the potential of alpha-bisabolol oxide B, a plant secondary metabolite and an alpha bisabolol derivative, in glioblastoma for the inhibitory mechanisms of bcl-2 family proteins, being non-toxic and non-mutagenic.

References

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  • Al-Ghanim, K.A., Krishnappa, K., Pandiyan, J., Nicoletti, M., Gurunathan, B., & Govindarajan, M. (2023). Insecticidal potential of Matricaria chamomilla’s essential oil and its components (E)-β-farnesene, germacrene D, and α-bisabolol oxide A against agricultural pests, malaria, and Zika virus vectors. Agriculture, 13(4), 779.
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  • Bickerton, G.R., Paolini, G.V., Besnard, J., Muresan, S., & Hopkins, A.L., (2012). Quantifying the chemical beauty of drugs. Nature Chemistry, 4(2), 90 98. https://doi.org/10.1038/nchem.1243
  • BIOVIA (2021). Discovery Studio Visualizer. v21.1.0.20298. Dassault Systèmes; San Diego, CA, USA: 2021. Dassault Systèmes.
  • Calis, S., Dogan, B., Durdagi, S., Celebi, A., Yapicier, O., Kilic, T., ... Avsar, T. (2022). A novel BH3 mimetic Bcl-2 inhibitor promotes autophagic cell death and reduces in vivo Glioblastoma tumor growth. Cell Death Discovery, 8(1), 433. https://doi.org/10.1038/s41420-022-01225-9
  • Cervelli, M.J., & Russ, G.R. (2010). Principles of drug therapy, dosing, and prescribing in chronic kidney disease and renal replacement therapy. In Comprehensive Clinical Nephrology (pp. 871-893). Elsevier.
  • Chandrasekaran, B., Abed, S.N., Al-Attraqchi, O., Kuche, K., & Tekade, R.K. (2018). Computer-aided prediction of pharmacokinetic (ADMET) properties. In Dosage form design parameters (pp. 731-755). Elsevier.
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  • Divya Rajaselvi, N., Jida, M.D., Nair, D.B., Sujith, S., Beegum, N., & Nisha, A.R. (2023). Toxicity prediction and analysis of flavonoid apigenin as a histone deacetylase inhibitor: an in-silico approach. In Silico Pharmacology, 11(1), 34.
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  • Hanif, F., Muzaffar, K., Perveen, K., Malhi, S.M., & Simjee, S.U. (2017). Glioblastoma multiforme: a review of its epidemiology and pathogenesis through clinical presentation and treatment. Asian Pacific Journal of Cancer Prevention: APJCP, 18(1), 3.
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  • Javed, H., Meeran, M.N., Azimullah, S., Bader Eddin, L., Dwivedi, V.D., Jha, N.K., & Ojha, S. (2020). α-Bisabolol, a dietary bioactive phytochemical attenuates dopaminergic neurodegeneration through modulation of oxidative stress, neuroinflammation and apoptosis in rotenone-induced rat model of Parkinson’s disease. Biomolecules, 10(10), 1421.
  • Kale, J., Osterlund, E.J., & Andrews, D.W. (2018). BCL-2 family proteins: changing partners in the dance towards death. Cell Death & Differentiation, 25(1), 65-80.
  • Kamran, S., Sinniah, A., Abdulghani, M.A., & Alshawsh, M.A. (2022). Therapeutic potential of certain terpenoids as anticancer agents: a scoping review. Cancers, 14(5), 1100.
  • Kowalski, R., & Wawrzykowski, J. (2009). Essential oils analysis in dried materials and granulates obtained from Thymus vulgaris L., Salvia officinalis L., Mentha piperita L. and Chamomilla recutita L. Flavour and Fragrance Journal, 24(1), 31-35.
  • Lessene, G., Czabotar, P.E., Sleebs, B.E., Zobel, K., Lowes, K.N., Adams, J.M., ... Watson, K.G. (2013). Structure-guided design of a selective BCL-XL inhibitor. Nature Chemical Biology, 9(6), 390-397. https://doi.org/10.1038/nchembio.1246
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  • Mombelli, E., & Pandard, P. (2021). Evaluation of the OECD QSAR toolbox automatic workflow for the prediction of the acute toxicity of organic chemicals to fathead minnow. Regulatory Toxicology and Pharmacology, 122, 104893.
  • Morshedloo, M.R., Ebadi, A., Maggi, F., Fattahi, R., Yazdani, D., & Jafari, M. (2015). Chemical characterization of the essential oil compositions from Iranian populations of Hypericum perforatum L. Industrial Crops and Products, 76, 565-573.
  • Mosca, L., Ilari, A., Fazi, F., Assaraf, Y.G., & Colotti, G. (2021). Taxanes in cancer treatment: Activity, chemoresistance and its overcoming. Drug Resistance Updates, 54, 100742.
  • Murata, Y., Kokuryo, T., Yokoyama, Y., Yamaguchi, J., Miwa, T., Shibuya, M., ... & Nagino, M. (2017). The anticancer effects of novel α-bisabolol derivatives against pancreatic cancer. Anticancer Research, 37(2), 589-598.
  • Oner, E., Al-Khafaji, K., Mezher, M. H., Demirhan, I., Suhail Wadi, J., Belge Kurutas, E., ... Choowongkomon, K. (2023). Investigation of berberine and its derivatives in Sars Cov-2 main protease structure by molecular docking, PROTOX-II and ADMET methods: in machine learning and in silico study. Journal of Biomolecular Structure and Dynamics, 41(19), 9366-9381. https://doi.org/10.1080/07391102.2022.2142848
  • Pfeffer, C.M., & Singh, A.T. (2018). Apoptosis: a target for anticancer therapy. International Journal of Molecular Sciences, 19(2), 448.
  • Pires, D.E.V., Blundell, T.L., & Ascher, D.B. (2015). pkCSM: Predicting Small-Molecule Pharmacokinetic and Toxicity Properties Using Graph-Based Signatures. Journal of Medicinal Chemistry, 58(9), 4066-4072. https://doi.org/10.1021/acs.jmedchem.5b00104
  • Poustforoosh, A., Faramarz, S., Nematollahi, M.H., Hashemipour, H., Tüzün, B., Pardakhty, A., & Mehrabani, M. (2022). 3D‐QSAR, molecular docking, molecular dynamics, and ADME/T analysis of marketed and newly designed flavonoids as inhibitors of Bcl‐2 family proteins for targeting U‐87 glioblastoma. Journal of Cellular Biochemistry, 123(2), 390-405.
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In-silico investigation of alpha-bisabolol and derivatives as inhibitors of bcl-2 family proteins for targeting glioblastoma

Year 2025, Volume: 12 Issue: 1, 1 - 15

Abstract

Glioblastoma is one of the most common and destructive types of tumors, with an increasing number around the world. Alpha-bisabolol is a plant secondary metabolite with discovered anticancer activity, which can also be considered a potential treatment for glioblastoma. In silico investigations can provide adequate information for understanding the roles of alpha-bisabolol compounds in glioblastoma. For this purpose, computational drug design procedures were applied to investigate the anti-glioblastoma biotherapeutic potential of alpha-bisabolol compounds. In this study, bcl-2 family proteins' inhibitory activity of alpha-bisabolol compounds and their toxicity properties were investigated by molecular docking studies. Toxicity properties were evaluated by the prediction tools as, CarcinoPred for carcinogenicity and LAZAR for mutagenicity, pkCSM, and SwissADME for absorption, distribution, metabolism, excretion and toxicity (ADMET) analysis and BOILED-Egg model, PASS prediction to analyze biological functions and druggability, DruLiTo program to compute the drug likeness property and QSAR Toolbox for QSAR modeling. The results reveal the potential of alpha-bisabolol oxide B, a plant secondary metabolite and an alpha bisabolol derivative, in glioblastoma for the inhibitory mechanisms of bcl-2 family proteins, being non-toxic and non-mutagenic.

References

  • Al-Azri, M.H.J.O.M.J. (2016). Delay in cancer diagnosis: causes and possible solutions. 31(5), 325.
  • Al-Ghanim, K.A., Krishnappa, K., Pandiyan, J., Nicoletti, M., Gurunathan, B., & Govindarajan, M. (2023). Insecticidal potential of Matricaria chamomilla’s essential oil and its components (E)-β-farnesene, germacrene D, and α-bisabolol oxide A against agricultural pests, malaria, and Zika virus vectors. Agriculture, 13(4), 779.
  • Andersen, F. (1999). Final Report on the safety assessment of Bisabolol. International Journal of Toxicology, 18, 33-40. https://doi.org/10.1177/109158189901800305
  • Arunachalam, S., Nagoor Meeran, M.F., Azimullah, S., Kumar Jha, N., Saraswathiamma, D., Albawardi, A., ... & Ojha, S. (2022). α-Bisabolol Attenuates NF-κB/MAPK Signaling Activation and ER-Stress-Mediated Apoptosis by Invoking Nrf2-Mediated Antioxidant Defense Systems against Doxorubicin-Induced Testicular Toxicity in Rats. Nutrients, 14(21), 4648.
  • Bickerton, G.R., Paolini, G.V., Besnard, J., Muresan, S., & Hopkins, A.L., (2012). Quantifying the chemical beauty of drugs. Nature Chemistry, 4(2), 90 98. https://doi.org/10.1038/nchem.1243
  • BIOVIA (2021). Discovery Studio Visualizer. v21.1.0.20298. Dassault Systèmes; San Diego, CA, USA: 2021. Dassault Systèmes.
  • Calis, S., Dogan, B., Durdagi, S., Celebi, A., Yapicier, O., Kilic, T., ... Avsar, T. (2022). A novel BH3 mimetic Bcl-2 inhibitor promotes autophagic cell death and reduces in vivo Glioblastoma tumor growth. Cell Death Discovery, 8(1), 433. https://doi.org/10.1038/s41420-022-01225-9
  • Cervelli, M.J., & Russ, G.R. (2010). Principles of drug therapy, dosing, and prescribing in chronic kidney disease and renal replacement therapy. In Comprehensive Clinical Nephrology (pp. 871-893). Elsevier.
  • Chandrasekaran, B., Abed, S.N., Al-Attraqchi, O., Kuche, K., & Tekade, R.K. (2018). Computer-aided prediction of pharmacokinetic (ADMET) properties. In Dosage form design parameters (pp. 731-755). Elsevier.
  • Costescu, C.I., Rădoi, B.P., Hădărugă, N.G., Gruia, A.T., Riviș, A., Pârvu, D., ... Hădărugă, D.I. (2014). Obtaining and characterization of Achillea millefolium L. extracts. Journal of Agroalimentary Processes and Technologies 20(2), 142-149.
  • Daina, A., Michielin, O., & Zoete, V. (2017). SwissADME: a free web tool to evaluate pharmacokinetics, drug-likeness and medicinal chemistry friendliness of small molecules. Scientific Reports, 7(1), 42717.
  • Daina, A., & Zoete, V. (2016). A boiled‐egg to predict gastrointestinal absorption and brain penetration of small molecules. ChemMedChem, 11(11), 1117-1121.
  • Davis, M.E. (2016). Glioblastoma: overview of disease and treatment. Clinical Journal of Oncology Nursing, 20(5), S2.
  • Detoni, C.B., Cabral-Albuquerque, E.C.M., Hohlemweger, S.V.A., Sampaio, C., Barros, T.F., & Velozo, E.S. (2009). Essential oil from Zanthoxylum tingoassuiba loaded into multilamellar liposomes useful as antimicrobial agents. Journal of Microencapsulation, 26(8), 684-691.
  • Divya Rajaselvi, N., Jida, M.D., Nair, D.B., Sujith, S., Beegum, N., & Nisha, A.R. (2023). Toxicity prediction and analysis of flavonoid apigenin as a histone deacetylase inhibitor: an in-silico approach. In Silico Pharmacology, 11(1), 34.
  • Eddin, L.B., Jha, N.K., Goyal, S.N., Agrawal, Y.O., Subramanya, S.B., Bastaki, S.M., & Ojha, S. (2022). Health benefits, pharmacological effects, molecular mechanisms, and therapeutic potential of α-bisabolol. Nutrients, 14(7), 1370.
  • Fang, D., Wang, H., Li, M., & Wei, W. (2019). α-bisabolol enhances radiotherapy-induced apoptosis in endometrial cancer cells by reducing the effect of XIAP on inhibiting caspase-3. Bioscience Reports, 39(6), BSR20190696.
  • Filimonov, D.A., Lagunin, A.A., Gloriozova, T.A., Rudik, A.V., Druzhilovskii, D.S., Pogodin, P.V., & Poroikov, V.V. (2014). Prediction of the biological activity spectra of organic compounds using the PASS online web resource. Chemistry of Heterocyclic Compounds, 50, 444-457.
  • Gasteiger, J., & Marsili, M. (1978). A new model for calculating atomic charges in molecules. Tetrahedron Letters, 19(34), 3181-3184.
  • Gielecińska, A., Kciuk, M., Mujwar, S., Celik, I., Kołat, D., Kałuzińska-Kołat, Ż., & Kontek, R. (2023). Substances of natural origin in medicine: Plants vs. cancer. Cells, 12(7), 986.
  • Ha, H., Park, K., Kang, G., & Lee, S. (2019). QSAR study using acute toxicity of Daphnia magna and Hyalella azteca through exposure to polycyclic aromatic hydrocarbons (PAHs). Ecotoxicology, 28, 333-342.
  • Hanif, F., Muzaffar, K., Perveen, K., Malhi, S.M., & Simjee, S.U. (2017). Glioblastoma multiforme: a review of its epidemiology and pathogenesis through clinical presentation and treatment. Asian Pacific Journal of Cancer Prevention: APJCP, 18(1), 3.
  • He, W., Li, X., Morsch, M., Ismail, M., Liu, Y., Rehman, F.U., ... Shi, B. (2022). Brain-Targeted Codelivery of Bcl-2/Bcl-xl and Mcl-1 Inhibitors by Biomimetic Nanoparticles for Orthotopic Glioblastoma Therapy. ACS Nano, 16(4), 6293 6308. https://doi.org/10.1021/acsnano.2c00320
  • Helma, C., Rautenberg, M., & Gebele, D. (2017). Nano-lazar: read across predictions for nanoparticle toxicities with calculated and measured properties. Frontiers in pharmacology, 8, 377.
  • Helma, C. (2006). Lazy structure-activity relationships (lazar) for the prediction of rodent carcinogenicity and Salmonella mutagenicity. Molecular Diversity, 10(2), 147-158.
  • Jakalian, A., Jack, D.B., & Bayly, C.I. (2002). Fast, efficient generation of high‐quality atomic charges. AM1‐BCC model: II. Parameterization and validation. Journal of Computational Chemistry, 23(16), 1623-1641.
  • Javed, H., Meeran, M.N., Azimullah, S., Bader Eddin, L., Dwivedi, V.D., Jha, N.K., & Ojha, S. (2020). α-Bisabolol, a dietary bioactive phytochemical attenuates dopaminergic neurodegeneration through modulation of oxidative stress, neuroinflammation and apoptosis in rotenone-induced rat model of Parkinson’s disease. Biomolecules, 10(10), 1421.
  • Kale, J., Osterlund, E.J., & Andrews, D.W. (2018). BCL-2 family proteins: changing partners in the dance towards death. Cell Death & Differentiation, 25(1), 65-80.
  • Kamran, S., Sinniah, A., Abdulghani, M.A., & Alshawsh, M.A. (2022). Therapeutic potential of certain terpenoids as anticancer agents: a scoping review. Cancers, 14(5), 1100.
  • Kowalski, R., & Wawrzykowski, J. (2009). Essential oils analysis in dried materials and granulates obtained from Thymus vulgaris L., Salvia officinalis L., Mentha piperita L. and Chamomilla recutita L. Flavour and Fragrance Journal, 24(1), 31-35.
  • Lessene, G., Czabotar, P.E., Sleebs, B.E., Zobel, K., Lowes, K.N., Adams, J.M., ... Watson, K.G. (2013). Structure-guided design of a selective BCL-XL inhibitor. Nature Chemical Biology, 9(6), 390-397. https://doi.org/10.1038/nchembio.1246
  • Lim, P.T., Goh, B.H., & Lee, W.-L. (2022). Taxol: Mechanisms of action against cancer, an update with current research. In Paclitaxel (pp. 47-71). Elsevier.
  • Lipinski, C.A., Lombardo, F., Dominy, B.W., & Feeney, P.J. (1997). Experimental and computational approaches to estimate solubility and permeability in drug discovery and development settings. Advanced Drug Delivery Reviews, 23(1), 3 25. https://doi.org/10.1016/S0169-409X(96)00423-1
  • Mantovani, A.L., Vieira, G.P., Cunha, W.R., Groppo, M., Santos, R.A., Rodrigues, V., ... & Crotti, A.E. (2013). Chemical composition, antischistosomal and cytotoxic effects of the essential oil of Lavandula angustifolia grown in Southeastern Brazil. Revista Brasileira de Farmacognosia, 23(6), 877-884.
  • Mombelli, E., & Pandard, P. (2021). Evaluation of the OECD QSAR toolbox automatic workflow for the prediction of the acute toxicity of organic chemicals to fathead minnow. Regulatory Toxicology and Pharmacology, 122, 104893.
  • Morshedloo, M.R., Ebadi, A., Maggi, F., Fattahi, R., Yazdani, D., & Jafari, M. (2015). Chemical characterization of the essential oil compositions from Iranian populations of Hypericum perforatum L. Industrial Crops and Products, 76, 565-573.
  • Mosca, L., Ilari, A., Fazi, F., Assaraf, Y.G., & Colotti, G. (2021). Taxanes in cancer treatment: Activity, chemoresistance and its overcoming. Drug Resistance Updates, 54, 100742.
  • Murata, Y., Kokuryo, T., Yokoyama, Y., Yamaguchi, J., Miwa, T., Shibuya, M., ... & Nagino, M. (2017). The anticancer effects of novel α-bisabolol derivatives against pancreatic cancer. Anticancer Research, 37(2), 589-598.
  • Oner, E., Al-Khafaji, K., Mezher, M. H., Demirhan, I., Suhail Wadi, J., Belge Kurutas, E., ... Choowongkomon, K. (2023). Investigation of berberine and its derivatives in Sars Cov-2 main protease structure by molecular docking, PROTOX-II and ADMET methods: in machine learning and in silico study. Journal of Biomolecular Structure and Dynamics, 41(19), 9366-9381. https://doi.org/10.1080/07391102.2022.2142848
  • Pfeffer, C.M., & Singh, A.T. (2018). Apoptosis: a target for anticancer therapy. International Journal of Molecular Sciences, 19(2), 448.
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There are 55 citations in total.

Details

Primary Language English
Subjects Pharmaceutical Chemistry, Natural Products and Bioactive Compounds
Journal Section Articles
Authors

Nilüfer Vural 0000-0003-3047-3004

Sibel Kaymak This is me 0000-0002-6523-7637

Early Pub Date January 19, 2025
Publication Date
Submission Date March 7, 2024
Acceptance Date September 19, 2024
Published in Issue Year 2025 Volume: 12 Issue: 1

Cite

APA Vural, N., & Kaymak, S. (2025). In-silico investigation of alpha-bisabolol and derivatives as inhibitors of bcl-2 family proteins for targeting glioblastoma. International Journal of Secondary Metabolite, 12(1), 1-15.
International Journal of Secondary Metabolite

e-ISSN: 2148-6905