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Design, synthesis, and biological evaluation of indolin-2-one derivatives as novel cyclin-dependent protein kinase 8 (CDK8) inhibitors - 03/02/23

Doi : 10.1016/j.biopha.2023.114258 
Jui-Yi Hsu a, b, 1, Kai-Cheng Hsu b, c, d, e, f, g, 1, Ching Sun h, 2, Ching-Hsuan Chou h, 2, Tony Eight Lin b, Tzu-Ying Sung i, Hui-Ju Tseng j, Shih-Chung Yen k, Chia-Ron Yang h, , Wei-Jan Huang d, l,
a Ph.D. Program for Cancer Molecular Biology and Drug Discovery, College of Medical Science and Technology, Taipei Medical University and Academia Sinica, Taipei, Taiwan 
b Graduate Institute of Cancer Biology and Drug Discovery, College of Medical Science and Technology, Taipei Medical University, Taipei, Taiwan 
c Ph.D. Program for Cancer Molecular Biology and Drug Discovery, College of Medical Science and Technology, Taipei Medical University, Taipei, Taiwan 
d Ph.D. Program in Drug Discovery and Development Industry, College of Pharmacy, Taipei Medical University, Taipei, Taiwan 
e TMU Research Center for Drug Discovery, Taipei Medical University, Taipei, Taiwan 
f TMU Research Center of Cancer Translational Medicine, Taipei Medical University, Taipei, Taiwan 
g Cancer Center, Wan Fang Hospital, Taipei Medical University, Taipei, Taiwan 
h School of Pharmacy, College of Medicine, National Taiwan University, Taipei, Taiwan 
i Biomedical Translation Research Center, Academia Sinica, Taipei, Taiwan 
j Department of Pharmacology and Pharmaceutical Sciences, School of Pharmacy, University of Southern California, Los Angeles, California, United States 
k Warshel Institute for Computational Biology, The Chinese University of Hong Kong (Shenzhen), Shenzhen, Guangdong, People’s Republic of China 
l School of Pharmacy, Taipei Medical University, Taipei, Taiwan 

Correspondence to: School of Pharmacy, National Taiwan University, Taipei, Taiwan.School of Pharmacy, National Taiwan UniversityTaipeiTaiwan⁎⁎Corresponding author at: School of Pharmacy, Taipei Medical University, Taipei, Taiwan.School of Pharmacy, Taipei Medical UniversityTaipeiTaiwan

Abstract

Cyclin-dependent protein kinase 8 (CDK8) plays important roles in regulating fibrotic growth factors and inflammatory signaling pathways. Long-term chronic inflammation of the lungs can lead to idiopathic pulmonary fibrosis (IPF). Abnormal alveolar epithelial regeneration leads to the release of various fibrotic growth factors and the activation of inflammatory cells. CDK8 regulates profibrotic cytokines broadly implicated in the pathogenesis of fibrosis. Therefore, inhibition of CDK8 is considered a promising strategy for treating IPF. Here, CDK8 inhibitors were designed and optimized using a fragment-based drug design strategy. Testing results revealed that 71% of the synthesized compounds inhibited CDK8 activity better than the original compound E966–0530. Of these compounds, compound 4k exhibited the strongest CDK8 enzyme-inhibiting activity (IC50 =129 nM). Notably, it displayed a 13-fold increase in potency when compared to E966–0530. Experiments on toxicity and inhibition of epithelial-mesenchymal transition (EMT) protein expressions showed that compound 4k can inhibit EMT protein expressions, but with no significant cytotoxicity for alveolar epithelial cells. Compound 4k showed a potent inhibitory effect in cell migration assays. Furthermore, compound 4k significantly inhibited the phosphorylation of p-Smad3 and RNA Pol II, which are critical mediators in the fibrotic response signaling pathway. Compound 4k remarkably reduced TGF-β1-induced oxidative stress. The above results reveal optimized CDK8 inhibitors with potential use for IPF therapeutic treatment.

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Graphical Abstract




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Highlights

Novel series of indolin-2-one-based CDK8 inhibitors were discovered targeting IPF.
Structure-activity relationship of the produced CDK8 inhibitors has been revealed.
Molecular modeling analyses show binding modes between the inhibitors and CDK8.
In-vitro assays show these CDK8 inhibitors regulated IPF-associated biomarkers.

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Keywords : Cyclin-dependent protein kinase 8 (CDK8), Kinase inhibitor, Idiopathic pulmonary fibrosis (IPF), Indolin-2-one, Lead optimization


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