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Exploring the binding dynamics of triazolyl-thio-oxazines for MDM2-p53 disruption: Design, synthesis, and p53
Bhanuprakash C Narasimhachar1, Omantheswara Nagaraja2, Kwang Seok Ahn3
1Department of Chemistry, Yuvaraja's College, University of Mysore, Mysuru, 570005, Karnataka, India.
Abstract:
The mouse double minute 2 homolog (MDM2) - p53 interaction inactivates p53, a key tumor suppressor, and has been validated as a target for cancer therapy. Four triazolyl-thio-oxazines 4(a-d) were rationally designed based on a three-finger pharmacophore model, which parallels the binding conformation of p53 to suppress this oncogenic interaction. All compounds were characterized by 1H/13C NMR, IR, and mass spectrometry, whereas 4a was characterized by X-ray crystallography. All compounds bound to the MDM2 binding site at key residues (Leu54, Leu57, Ile61, Met62, Phe86, and Tyr100) with similar binding affinities (-7.88 to -8.75 kcal/mol). Further 200 ns molecular dynamics simulations and MM-GBSA analyses were performed to determine the precise differences. Complex 4a demonstrated better binding stability (RMSD <2.0 Å) and MM-GBSA Binding Score ΔGbind (-172.718 kcal/mol) than either Nutlin-3a or the p53 peptide. Its fluorobenzene dives further into the MDM2 cleft than the chlorobenzene ring in Nutlin-3a, resulting in stronger π-π stacking and hydrophobic interactions. SwissADME profiling also predicted that 4a has a good balance of pharmacokinetic properties. This was evident from the cytotoxicity studies (MCF-7 breast cancer cells), which revealed 4a to be the most potent (IC₅₀ = 4.379 μM). Further Western blot analysis showed significant upregulation of p53 and p21 in MCF-7 cells upon treatment with 4(a-d). In contrast, no significant induction of p53 or p21 was observed in MDA-MB-468 cells, confirming the upregulation of wild-type p53. These results suggest that 4a is a promising candidate for further biological evaluation as an MDM2-p53 interaction inhibitor.
Insights
New triazolyl-thio-oxazines were designed to inhibit the mouse double minute 2 homolog (MDM2)-p53 interaction, a cancer target. Compound 4a showed potent anticancer activity by stabilizing p53, making it a promising therapeutic candidate.
Area of Science:
- Medicinal Chemistry
- Molecular Biology
- Computational Chemistry
Background:
- The mouse double minute 2 homolog (MDM2)-p53 interaction is crucial in cancer, as MDM2 inactivates the tumor suppressor p53.
- Inhibiting the MDM2-p53 interaction is a validated strategy for cancer therapy.
Purpose of the Study:
- To design and synthesize novel compounds targeting the MDM2-p53 interaction based on a three-finger pharmacophore model.
- To evaluate the binding affinity, stability, pharmacokinetic properties, and anticancer efficacy of the designed compounds.
Main Methods:
- Rational drug design using a three-finger pharmacophore model.
- Synthesis and characterization of four triazolyl-thio-oxazines (4a-d) using NMR, IR, mass spectrometry, and X-ray crystallography (for 4a).
- In silico studies including molecular dynamics simulations and MM-GBSA analysis.
- In vitro cytotoxicity assays (MCF-7 cells) and western blot analysis to assess p53 and p21 upregulation.
Main Results:
- All synthesized compounds (4a-d) bound to the MDM2 binding site with high affinity.
- Compound 4a exhibited superior binding stability and a favorable MM-GBSA binding score compared to Nutlin-3a and p53 peptide.
- Compound 4a demonstrated potent cytotoxicity against MCF-7 breast cancer cells (IC50 = 4.379 μM) and significantly upregulated p53 and p21.
- Differential effects on p53/p21 levels in different cell lines confirmed wild-type p53 upregulation.
Conclusions:
- The designed triazolyl-thio-oxazines effectively inhibit the MDM2-p53 interaction.
- Compound 4a shows significant promise as an MDM2-p53 interaction inhibitor with favorable drug-like properties.
- Further biological evaluation of compound 4a is warranted for its potential as a cancer therapeutic.
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