Development of novel ALOX15 inhibitors combining dual machine learning filtering and fragment substitution optimisation approaches, molecular docking and dynamic simulation methods

J Enzyme Inhib Med Chem. 2024 Dec;39(1):2301756. doi: 10.1080/14756366.2024.2301756. Epub 2024 Jan 12.

Abstract

The oxidation of unsaturated lipids, facilitated by the enzyme Arachidonic acid 15-lipoxygenase (ALOX15), is an essential element in the development of ferroptosis. This study combined a dual-score exclusion strategy with high-throughput virtual screening, naive Bayesian and recursive partitioning machine learning models, the already established ALOX15 inhibitor i472, and a docking-based fragment substitution optimisation approach to identify potential ALOX15 inhibitors, ultimately leading to the discovery of three FDA-approved drugs that demonstrate optimal inhibitory potential against ALOX15. Through fragment substitution-based optimisation, seven new inhibitor structures have been developed. To evaluate their practicality, ADMET predictions and molecular dynamics simulations were performed. In conclusion, the compounds found in this study provide a novel approach to combat conditions related to ferroptosis-related injury by inhibiting ALOX15.

Keywords: ALOX15; Ferroptosis; machine learning; molecular dynamic simulation; virtual screening.

MeSH terms

  • Arachidonate 15-Lipoxygenase / metabolism
  • Bayes Theorem
  • Lipoxygenase Inhibitors* / pharmacology
  • Machine Learning
  • Molecular Docking Simulation
  • Molecular Dynamics Simulation*

Substances

  • Arachidonate 15-Lipoxygenase
  • Lipoxygenase Inhibitors

Grants and funding

This research was funded by the Science and Technology Special Project of Zhanjiang (2022A01034); The Guangdong Provincial Department of Education Research Project (2022KTSCX); The Science and technology program of Guangdong Province (2023A1515010850); The Key Discipline Construction Project of Guangdong Medical University (4SG22004G, 2022KTSCX043); The National Natural Science Foundation of China (82370564)