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Park H, Lee S, Hong S. Discovery of Dual Inhibitors for Wild Type and D816V Mutant of c-KIT Kinase through Virtual and Biochemical Screening of Natural Products. JOURNAL OF NATURAL PRODUCTS 2016; 79:293-299. [PMID: 26807861 DOI: 10.1021/acs.jnatprod.5b00851] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
Although stem cell factor receptor (c-KIT) kinase is responsible for various malignant human cancers, the presence of constitutively active gain-of-function mutants has made it difficult to discover new anticancer agents using c-KIT as the target protein. To identify the common inhibitors of wild-type c-KIT and the most abundant gain-of-function mutant (D816V), the virtual screening of natural products was performed for the two target proteins in parallel with the scoring function improved by implementing a sophisticated solvation free energy term. As a result, four common inhibitors of natural origin are found with biochemical potencies ranging from low micromolar to submicromolar levels. The results of extensive docking simulations show that although the natural-product inhibitors establish weaker hydrophobic interactions with the D816V mutant than with the wild type, they exhibit a little higher inhibitory activity for the former than the latter by strengthening the hydrogen-bond interactions to a sufficient extent. Of the four natural-product inhibitors, (Z)-6-hydroxy-2-(4-methoxybenzylidene)benzofuran-3(2H)-one (3) is anticipated to serve as a new molecular core for the structure-activity relationship studies to optimize the biochemical potencies because it exhibits good inhibitory activity against both the wild type and D816V mutant despite its low molecular weight (268.3 amu).
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Affiliation(s)
- Hwangseo Park
- Department of Bioscience and Biotechnology & Institute of Anticancer Medicine Development, Sejong University , 209 Neungdong-ro, Kwangjin-gu, Seoul 143-747, Korea
| | - Soyoung Lee
- Center for Catalytic Hydrocarbon Functionalizations, Institute for Basic Science (IBS) & Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST) , Daejeon 305-701, Korea
| | - Sungwoo Hong
- Center for Catalytic Hydrocarbon Functionalizations, Institute for Basic Science (IBS) & Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST) , Daejeon 305-701, Korea
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3
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Tang J, Szwajda A, Shakyawar S, Xu T, Hintsanen P, Wennerberg K, Aittokallio T. Making Sense of Large-Scale Kinase Inhibitor Bioactivity Data Sets: A Comparative and Integrative Analysis. J Chem Inf Model 2014; 54:735-43. [DOI: 10.1021/ci400709d] [Citation(s) in RCA: 145] [Impact Index Per Article: 14.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Jing Tang
- Institute for Molecular Medicine Finland (FIMM), University of Helsinki, Tukholmankatu 8, FI-00290, Helsinki, Finland
| | - Agnieszka Szwajda
- Institute for Molecular Medicine Finland (FIMM), University of Helsinki, Tukholmankatu 8, FI-00290, Helsinki, Finland
| | - Sushil Shakyawar
- Institute for Molecular Medicine Finland (FIMM), University of Helsinki, Tukholmankatu 8, FI-00290, Helsinki, Finland
| | - Tao Xu
- Institute for Molecular Medicine Finland (FIMM), University of Helsinki, Tukholmankatu 8, FI-00290, Helsinki, Finland
| | - Petteri Hintsanen
- Institute for Molecular Medicine Finland (FIMM), University of Helsinki, Tukholmankatu 8, FI-00290, Helsinki, Finland
| | - Krister Wennerberg
- Institute for Molecular Medicine Finland (FIMM), University of Helsinki, Tukholmankatu 8, FI-00290, Helsinki, Finland
| | - Tero Aittokallio
- Institute for Molecular Medicine Finland (FIMM), University of Helsinki, Tukholmankatu 8, FI-00290, Helsinki, Finland
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4
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Garcia P, Evanno Y, George P, Sevrin M, Ricci G, Malacria M, Aubert C, Gandon V. Regioselective Cobalt-Catalyzed Formation of Bicyclic 3- and 4-Aminopyridines. Org Lett 2011; 13:2030-3. [DOI: 10.1021/ol200417p] [Citation(s) in RCA: 66] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Pierre Garcia
- UPMC, Université Paris 06, IPCM 7201, 4 Place Jussieu, 75252 Paris Cedex 05, France, Sanofi-Aventis, 45 Chemin de Météline, 04200 Sisteron, France, and Sanofi-Aventis Recherche & Développement, 1 Avenue Pierre Brossolette, 91385 Chilly-Mazarin, France
| | - Yannick Evanno
- UPMC, Université Paris 06, IPCM 7201, 4 Place Jussieu, 75252 Paris Cedex 05, France, Sanofi-Aventis, 45 Chemin de Météline, 04200 Sisteron, France, and Sanofi-Aventis Recherche & Développement, 1 Avenue Pierre Brossolette, 91385 Chilly-Mazarin, France
| | - Pascal George
- UPMC, Université Paris 06, IPCM 7201, 4 Place Jussieu, 75252 Paris Cedex 05, France, Sanofi-Aventis, 45 Chemin de Météline, 04200 Sisteron, France, and Sanofi-Aventis Recherche & Développement, 1 Avenue Pierre Brossolette, 91385 Chilly-Mazarin, France
| | - Mireille Sevrin
- UPMC, Université Paris 06, IPCM 7201, 4 Place Jussieu, 75252 Paris Cedex 05, France, Sanofi-Aventis, 45 Chemin de Météline, 04200 Sisteron, France, and Sanofi-Aventis Recherche & Développement, 1 Avenue Pierre Brossolette, 91385 Chilly-Mazarin, France
| | - Gino Ricci
- UPMC, Université Paris 06, IPCM 7201, 4 Place Jussieu, 75252 Paris Cedex 05, France, Sanofi-Aventis, 45 Chemin de Météline, 04200 Sisteron, France, and Sanofi-Aventis Recherche & Développement, 1 Avenue Pierre Brossolette, 91385 Chilly-Mazarin, France
| | - Max Malacria
- UPMC, Université Paris 06, IPCM 7201, 4 Place Jussieu, 75252 Paris Cedex 05, France, Sanofi-Aventis, 45 Chemin de Météline, 04200 Sisteron, France, and Sanofi-Aventis Recherche & Développement, 1 Avenue Pierre Brossolette, 91385 Chilly-Mazarin, France
| | - Corinne Aubert
- UPMC, Université Paris 06, IPCM 7201, 4 Place Jussieu, 75252 Paris Cedex 05, France, Sanofi-Aventis, 45 Chemin de Météline, 04200 Sisteron, France, and Sanofi-Aventis Recherche & Développement, 1 Avenue Pierre Brossolette, 91385 Chilly-Mazarin, France
| | - Vincent Gandon
- UPMC, Université Paris 06, IPCM 7201, 4 Place Jussieu, 75252 Paris Cedex 05, France, Sanofi-Aventis, 45 Chemin de Météline, 04200 Sisteron, France, and Sanofi-Aventis Recherche & Développement, 1 Avenue Pierre Brossolette, 91385 Chilly-Mazarin, France
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Kunz RK, Rumfelt S, Chen N, Zhang D, Tasker AS, Bürli R, Hungate R, Yu V, Nguyen Y, Whittington DA, Meagher KL, Plant M, Tudor Y, Schrag M, Xu Y, Ng GY, Hu E. Discovery of amido-benzisoxazoles as potent c-Kit inhibitors. Bioorg Med Chem Lett 2008; 18:5115-7. [DOI: 10.1016/j.bmcl.2008.07.111] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2008] [Revised: 07/23/2008] [Accepted: 07/28/2008] [Indexed: 10/21/2022]
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