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Incorporating Target Protein Structure Flexibility and Dynamics in Computational Drug Discovery Using Ensemble-Based Docking Analysis
Published on: June 20, 2025
Molecular docking and simulation studies of some pyrazolone-based bioactive ligands targeting the NF- B signaling
Surya Philip1, D R Sherin2, T K Manoj Kumar2
1Department of Chemistry, Mar Thoma College, Tiruvalla, Kerala, 689103, India. suryaphilip84@gmail.com.
Abstract:
NF-κB has become a predominant regulator responsible for multiple physiological and pathological processes. NF-κB signaling pathway has canonical and non-canonical components which strategize the cancer-related metabolic processes. Non-canonical NF-κB pathways are known to contribute towards the chemoresistance of cancer cells. Consequently, NF-κB can be utilized as a potential therapeutic target for modifying the behaviour of tumor cells. In view of this, we herein report a series of pyrazolone-based bioactive ligands that potentially target NF- κB and, thereby, unveil their anticancer properties. The pharmacological screening of the synthesized compounds were carried out using various virtual screening techniques. The anticancer studies of synthesized pyrazolones showed that APAU exhibited the most potent effect against the MCF-7 cells with an IC50 value of 30 μg/ml. Molecular docking studies revealed that the pyrazolones inhibited cell proliferation by targeting the NFκB signaling pathway. The molecular dynamics simulation studies predicted the stability and flexibility of pyrazolone-based bioactive ligands.
Insights
Researchers developed novel pyrazolone compounds targeting the NF-κB pathway to combat cancer. One compound, APAU, showed potent anticancer activity against MCF-7 cells, offering a potential therapeutic strategy.
Area of Science:
- Medicinal Chemistry
- Molecular Biology
- Oncology
Background:
- Nuclear factor kappa B (NF-κB) signaling is a key regulator in physiological and pathological processes, including cancer.
- Non-canonical NF-κB pathways are implicated in cancer cell chemoresistance, highlighting NF-κB as a potential therapeutic target.
- Targeting NF-κB offers a strategy to modify tumor cell behavior and overcome treatment resistance.
Purpose of the Study:
- To design and synthesize novel pyrazolone-based ligands with potential NF-κB inhibitory activity.
- To evaluate the anticancer properties of these synthesized compounds.
- To investigate the mechanism of action, specifically targeting the NF-κB signaling pathway.
Main Methods:
- Synthesis of a series of pyrazolone-based bioactive ligands.
- Pharmacological screening using virtual screening techniques.
- In vitro anticancer assays (e.g., IC50 determination against MCF-7 cells).
- Molecular docking and molecular dynamics simulations to elucidate binding interactions and pathway targeting.
Main Results:
- The synthesized pyrazolones were evaluated for their potential to target the NF-κB pathway.
- Compound APAU demonstrated significant anticancer activity against MCF-7 cells, with an IC50 value of 30 μg/ml.
- Molecular docking confirmed that the pyrazolones inhibit cell proliferation by targeting the NF-κB signaling pathway.
- Molecular dynamics simulations indicated favorable stability and flexibility of the pyrazolone-based ligands.
Conclusions:
- Pyrazolone-based ligands represent a promising class of compounds for targeting the NF-κB pathway.
- APAU exhibits potent anticancer effects, suggesting its potential as a therapeutic agent for cancer treatment.
- These findings support the development of NF-κB inhibitors for cancer therapy, particularly for chemoresistant tumors.
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