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Nat Chem Biol DOI:10.1038/nchembio.1984

Identification of cancer-cytotoxic modulators of PDE3A by predictive chemogenomics.

Publication TypeJournal Article
Year of Publication2016
Authorsde Waal, L, Lewis, TA, Rees, MG, Tsherniak, A, Wu, X, Choi, PS, Gechijian, L, Hartigan, C, Faloon, PW, Hickey, MJ, Tolliday, N, Carr, SA, Clemons, PA, Munoz, B, Wagner, BK, Shamji, AF, Koehler, AN, Schenone, M, Burgin, AB, Schreiber, SL, Greulich, H, Meyerson, M
JournalNat Chem Biol
Date Published2016 Feb
KeywordsCell Line, Cell Line, Tumor, Cell Survival, Cyclic Nucleotide Phosphodiesterases, Type 3, Cytotoxins, Drug Delivery Systems, Enzyme Activation, Enzyme Inhibitors, Genomics, Humans, Immunoblotting, Neoplasms, Pyridazines

High cancer death rates indicate the need for new anticancer therapeutic agents. Approaches to discovering new cancer drugs include target-based drug discovery and phenotypic screening. Here, we identified phosphodiesterase 3A modulators as cell-selective cancer cytotoxic compounds through phenotypic compound library screening and target deconvolution by predictive chemogenomics. We found that sensitivity to 6-(4-(diethylamino)-3-nitrophenyl)-5-methyl-4,5-dihydropyridazin-3(2H)-one, or DNMDP, across 766 cancer cell lines correlates with expression of the gene PDE3A, encoding phosphodiesterase 3A. Like DNMDP, a subset of known PDE3A inhibitors kill selected cancer cells, whereas others do not. Furthermore, PDE3A depletion leads to DNMDP resistance. We demonstrated that DNMDP binding to PDE3A promotes an interaction between PDE3A and Schlafen 12 (SLFN12), suggestive of a neomorphic activity. Coexpression of SLFN12 with PDE3A correlates with DNMDP sensitivity, whereas depletion of SLFN12 results in decreased DNMDP sensitivity. Our results implicate PDE3A modulators as candidate cancer therapeutic agents and demonstrate the power of predictive chemogenomics in small-molecule discovery.


Alternate JournalNat. Chem. Biol.
PubMed ID26656089
PubMed Central IDPMC4718766
Grant ListU01 CA176152 / CA / NCI NIH HHS / United States
3U54HG005032-05S1 / HG / NHGRI NIH HHS / United States
U54 HG005032 / HG / NHGRI NIH HHS / United States
P30 CA014051 / CA / NCI NIH HHS / United States
/ / Howard Hughes Medical Institute / United States
R35 CA197568 / CA / NCI NIH HHS / United States
U01CA176152 / CA / NCI NIH HHS / United States
1R35CA197568 / CA / NCI NIH HHS / United States