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Metadynamics Simulations Meet Ligand Design for the Reversible Inhibition of Human Peroxiredoxin 5
Laura Troussicot1, Florian E C Blanc1, Yoann Pascal2
1Institut des Sciences Analytiques, Université Lyon 1, CNRS, UMR 5280, Lyon 69100, France.
Abstract:
Using insights from funnel metadynamics, a molecular dynamics protocol that provides a detailed representation of protein-ligand interactions, we investigated how a single heavy-atom modification can enhance the activity of an initial hit against human peroxiredoxin 5. This improvement was validated by NMR experiments and enzyme-inhibition assays. Our results illustrate how molecular dynamics simulations offer a rational framework for designing ligands with improved properties, starting from low affinity but selective hits with minimal structural modifications.
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