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This autoimmune disorder involves the immune system attacking the myelin sheath in the central nervous system. Sphingosine\u20101\u2010phosphate receptor 1 (S1PR1) is a promising therapeutic target, with approved drugs like ponesimod acting as S1PR1 agonists. However, the exact mechanism of ponesimod's action on S1PR1 and its therapeutic effects in MS remains unclear. Our study, combining metadynamics, single\u2010cell transcriptomics, and drug repurposing, shows that ponesimod binds to S1PR1, causing the W269<jats:sup>6.48<\/jats:sup> amino acid to flip downward. This flip weakens interactions within the phosphorylation\u2010independent binding (PIF) motif while maintaining the N307<jats:sup>7.49<\/jats:sup>\u2010F265<jats:sup>6.44<\/jats:sup> interaction, activating Gi signaling. The downstream effects primarily involve the MAPK\/ERK and PI3K\u2010Akt pathways, which inhibit lymphocyte migration to lymph nodes, a crucial factor in ponesimod's clinical efficacy. Single\u2010cell transcriptomic analysis further elucidates the regulatory network and pathways modulated by ponesimod in MS. Notably, due to potential hepatotoxicity, we identified valproic acid (VPA) as a potential adjunct therapy through drug repurposing. VPA reduces hepatotoxicity and demonstrates efficacy in treating MS in animal studies. This research provides valuable insights into ponesimod's mechanism in MS treatment and highlights the potential of drug repurposing to improve MS therapy.<\/jats:p>","DOI":"10.1002\/chem.202404742","type":"journal-article","created":{"date-parts":[[2025,7,25]],"date-time":"2025-07-25T07:31:05Z","timestamp":1753428665000},"update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":3,"title":["Activation of S1PR1 by Ponesimod for Multiple Sclerosis Therapy: Uncovering MAPK and PI3K Pathway Mechanisms and Repurposing Potential"],"prefix":"10.1002","volume":"31","author":[{"given":"Yue","family":"Ran","sequence":"first","affiliation":[{"name":"School of Chemistry and Chemical Engineering Beijing Institute of Technology  Beijing 100081 China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xiao\u2010Nan","family":"Niu","sequence":"additional","affiliation":[{"name":"School of Chemistry and Chemical Engineering Beijing 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