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Updated: Feb 15, 2026

Pharmacophore Modeling for Targets with Extensive Ligand Libraries: A Case Study on SARS-CoV-2 Mpro
Published on: September 26, 2025
Biological evaluation and pharmacophore modeling of some benzoxazoles and their possible metabolites
Fatma Zilifdar1, Egemen Foto1, Tugba Ertan-Bolelli2
1Faculty of Science, Department of Molecular Biology, Hacettepe University, Ankara, Turkey.
Abstract:
A series of benzoxazole derivatives and some possible primary metabolites were evaluated as anticancer agents. In vitro anti-proliferative activities of the compounds were tested using the SRB assay on cancerous (HeLa) and non-cancerous (L929) cell lines. It was found that 17 of 21 tested compounds had cytotoxic activity on HeLa cells and the cytotoxic activities of the compounds were 15-700 times higher than on L929 cells. We generated two distinct pharmacophore models for the cytotoxic activities of the compounds on HeLa and L929 cells. While active compounds such as camptothecin and X8 fitted the two models generated for both cell lines, selective cytotoxic compounds such as XT3B fitted only the model generated for HeLa cells. Evaluation of the genotoxic activities of the cytotoxic compounds with the alkaline comet assay revealed that compounds X17 and XT3 showed strong genotoxic effects against HeLa cells at low concentrations whereas they had no genotoxic effect on L929 cells. Due to the selective ability for inducing DNA strand breaks only on cancerous cells, the compounds were identified as effective derivatives for anticancer candidates.
Insights
New benzoxazole derivatives show potent anticancer activity. These compounds selectively kill cancer cells (HeLa) over normal cells (L929), indicating promise as novel therapeutic agents.
Area of Science:
- Medicinal Chemistry
- Pharmacology
- Cancer Research
Background:
- Benzoxazole derivatives are explored for their therapeutic potential.
- Identifying selective anticancer agents is crucial for effective cancer treatment.
- Understanding mechanisms of action enhances drug development.
Purpose of the Study:
- To evaluate novel benzoxazole derivatives as anticancer agents.
- To assess the in vitro anti-proliferative and genotoxic activities of these compounds.
- To develop pharmacophore models for selective cytotoxicity.
Main Methods:
- Screening of 21 benzoxazole derivatives and metabolites for anti-proliferative activity using the SRB assay.
- Testing against cancerous (HeLa) and non-cancerous (L929) cell lines.
- Evaluating genotoxicity using the alkaline comet assay.
Main Results:
- 17 out of 21 compounds exhibited cytotoxic activity against HeLa cells.
- Cytotoxicity was significantly higher (15-700 times) in HeLa cells compared to L929 cells.
- Compounds X17 and XT3 demonstrated selective genotoxicity against HeLa cells, inducing DNA strand breaks without affecting L929 cells.
Conclusions:
- Benzoxazole derivatives show promising selective anticancer properties.
- The identified compounds are effective candidates for anticancer drug development due to their targeted genotoxicity.
- Pharmacophore models aid in understanding and predicting selective cytotoxic activity.
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