8UMG

Chromodomains of human CHD1 complexed with UNC10142

Summary for 8UMG

• Entry DOI: 10.2210/pdb8umg/pdb
• Descriptor: Chromodomain-helicase-DNA-binding protein 1, 1-{4-[{2-(azonan-1-yl)-6-methoxy-7-[3-(piperidin-1-yl)propoxy]quinazolin-4-yl}(methyl)amino]piperidin-1-yl}ethan-1-one, CHLORIDE ION, ... (4 entities in total)
• Functional Keywords: chd1, chromodomain-helicase dna-binding 1, methyllysine reader, peptide binding protein
• Biological source: Homo sapiens (human)
• Total number of polymer chains: 3
• Total formula weight: 67672.80

Authors

Graboski, A.L.,Redinbo, M.R. (deposition date: 2023-10-17, release date: 2024-10-23, Last modification date: 2025-11-05)

Primary citation

Johnson, R.L.,Graboski, A.L.,Li, F.,Norris-Drouin, J.L.,Walton, W.G.,Arrowsmith, C.H.,Redinbo, M.R.,Frye, S.V.,James, L.I.
Discovery of CHD1 Antagonists for PTEN-Deficient Prostate Cancer.
J.Med.Chem., 67:20056-20075, 2024

PubMed Abstract: CHD1 is a chromodomain-helicase DNA-binding protein that preferentially recognizes di- and trimethylated lysine 4 on histone H3 (H3K4me2/3). Genetic studies have established CHD1 as a synthetic lethal target in phosphatase and tensin homologue (PTEN)-deficient cancers. Despite this attractive therapeutic link, no inhibitors or antagonists of CHD1 have been reported to date. Herein, we report the discovery of UNC10142, a first-in-class small molecule antagonist of the tandem chromodomains of CHD1 that binds with an IC of 1.7 ± 0.2 μM. A cocrystal structure revealed a unique binding mode and competition pull-down experiments in cell lysates confirmed endogenous target engagement. Treatment of PTEN-deficient prostate cancer cells with UNC10142 led to a dose-dependent reduction in viability while PTEN-intact prostate cancer cells were unaffected, phenocopying genetic loss of CHD1. Overall, this study demonstrates the ligandability of the CHD1 chromodomains and suggests more potent and selective antagonists could translate to compounds of therapeutic value in PTEN-deficient cancers.

PubMed: 39508435
DOI: 10.1021/acs.jmedchem.4c01172

Experimental method

X-RAY DIFFRACTION (3.1 Å)