3,5,7-Substituted Pyrazolo[4,3-]Pyrimidine Inhibitors of Cyclin-Dependent Kinases and Cyclin K Degraders.

Radek Jorda, Libor Havlíček, Miroslav Peřina, Veronika Vojáčková, Tomáš Pospíšil, Stefan Djukic, Jana Škerlová, Jiří Grúz, Nicol Renešová, Pavel Klener, Pavlína Řezáčová, Miroslav Strnad, Vladimír Kryštof

Journal: Journal of medicinal chemistry 2022;65(13):8881-8896

PMID: 35749742

Full Text on American Chemical Society View on PubMed

Abstract

3,5,7-Trisubstituted pyrazolo[4,3-]pyrimidines have been identified as potent inhibitors of cyclin-dependent kinases (CDKs), which are established drug targets. Herein, we describe their further structural modifications leading to novel nanomolar inhibitors with strong antiproliferative activity. We determined the crystal structure of fully active CDK2/A2 with 5-(2-amino-1-ethyl)thio-3-cyclobutyl-7-[4-(pyrazol-1-yl)benzyl]amino-1(2)-pyrazolo[4,3-]pyrimidine () at 1.7 Å resolution, confirming the competitive mode of inhibition. Biochemical and cellular assays in lymphoma cell lines confirmed the expected mechanism of action through dephosphorylation of retinoblastoma protein and RNA polymerase II, leading to induction of apoptosis. Importantly, we also revealed an interesting ability of compound to induce proteasome-dependent degradation of cyclin K both in vitro and in a patient-derived xenograft in vivo. We propose that has a dual mechanism of action, acting as a kinase inhibitor and as a molecular glue inducing an interaction between CDK12 and DDB1 that leads to polyubiquitination of cyclin K and its subsequent degradation.

Address: Department of Experimental Biology, Faculty of Science, Palacký University Olomouc, Šlechtitelů 27, 78371 Olomouc, Czech Republic.; Isotope Laboratory, Institute of Experimental Botany, Czech Academy of Sciences, Vídeňská 1083, 14220 Prague, Czech Republic.; Department of Chemical Biology, Faculty of Science, Palacký University Olomouc, Šlechtitelů 27, 78371 Olomouc, Czech Republic.; Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Flemingovo Nám. 2, 16610 Prague, Czech Republic.; Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Flemingovo Nám. 2, 16610 Prague, Czech Republic.; Institute of Molecular Genetics, Czech Academy of Sciences, Vídeňská 1083, 14220 Prague, Czech Republic.; First Faculty of Medicine, Institute of Pathological Physiology, Charles University, 12108 Prague, Czech Republic.; First Faculty of Medicine, Institute of Pathological Physiology, Charles University, 12108 Prague, Czech Republic.; First Department of Internal Medicine-Hematology, General University Hospital and First Faculty of Medicine, Charles University, 12808 Prague, Czech Republic.; Laboratory of Growth Regulators, Palacký University and Institute of Experimental Botany, Czech Academy of Sciences, Šlechtitelů 27, 78371 Olomouc, Czech Republic.; Department of Experimental Biology, Faculty of Science, Palacký University Olomouc, Šlechtitelů 27, 78371 Olomouc, Czech Republic.; Institute of Molecular and Translational Medicine, Faculty of Medicine and Dentistry, Palacký University Olomouc, Hněvotínská 5, 77900 Olomouc, Czech Republic.

DOI: 10.1021/acs.jmedchem.1c02184

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https://doi.org/10.1021/acs.jmedchem.1c02184

MeSH Terms: Antineoplastic Agents, Cell Line, Tumor, Cyclin-Dependent Kinase 2, Cyclin-Dependent Kinases, Cyclins, Humans, Protein Kinase Inhibitors, Pyrimidines, Structure-Activity Relationship