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The nucleosome remodeling factor (NURF) alters chromatin accessibility through interactions with its largest subunit,the bromodomain PHD finger transcription factor BPTF. BPTF is overexpressed in several cancers and is an emerging anticancer target. Targeting the BPTF bromodomain presents a potential strategy for its inhibition and the evaluation of its functional significance; however, inhibitor development for BPTF has lagged behind those of other bromodomains. Here we describe the development of pyridazinone-based BPTF inhibitors. The lead compound, , possesses a high potency ( = 6.3 nM) and >350-fold selectivity over BET bromodomains. We identify an acidic triad in the binding pocket to guide future designs. We show that our inhibitors sensitize 4T1 breast cancer cells to doxorubicin but not BPTF knockdown cells, suggesting a specificity to BPTF. Given the high potency and good physicochemical properties of these inhibitors, we anticipate that they will be useful starting points for chemical tool development to explore the biological roles of BPTF.
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http://dx.doi.org/10.1021/acs.jmedchem.1c01294 | DOI Listing |
Biochemistry
August 2025
Department of Chemistry, University of Minnesota, Minneapolis, Minnesota 55455, United States.
Histone variant H2A.Z has been increasingly associated with cancer progression, including cancers characterized by the dysregulated function of the epigenetic reader protein BPTF (bromodomain and PHD finger containing transcription factor). Despite this association, a direct interaction between acetylated H2A.
View Article and Find Full Text PDFSci Rep
August 2025
Department of Hepatobiliary and Pancreatic Surgery (Ward 1), Affiliated Cancer Hospital of Xinjiang Medical University, Xinjiang Key Laboratory of Translational Biomedical Engineering, Urumqi, 830000, China.
Intercellular communication signals in the tumor microenvironment are closely related to behaviors such as cancer cell proliferation and immune evasion. However, the specific roles of intercellular signaling pathways in intrahepatic cholangiocarcinoma (ICC) have not yet been fully characterized. In this study, we analyzed publicly available single-cell RNA sequencing (scRNA-seq) data derived from paired samples of two intrahepatic cholangiocarcinoma (ICC) tissues and two adjacent normal tissues, thoroughly examining their cellular composition.
View Article and Find Full Text PDFGenome Biol
August 2025
State Key Laboratory of Metabolism and Regulation in Complex Organisms, TaiKang Center for Life and Medical Sciences, School of Basic Medical Sciences, Wuhan University, 115 DongHu Road, Research Building III, Room 404, Wuchang District, Wuhan, 430071, China.
Background: KAT6A-CBP (K/C) and KAT6A-P300 (K/P) fusions are recurrent genetic alterations in acute myeloid leukemia (AML) associated with poor prognosis. Despite their strong oncogenic potential, the mechanisms underlying their genomic targeting and leukemogenic function remain unclear. A major challenge has been their large size, which has impeded preclinical model development and mechanistic studies.
View Article and Find Full Text PDFbioRxiv
June 2025
Departments of Physics and Biology, Illinois Institute of Technology, Chicago, USA.
Many transcription factors regulate DNA accessibility and gene expression by recognizing post-translational modifications on histone tails within nucleosomes. These interactions are often studied using short peptide mimics of histone tails, which may overlook conformational changes that occur in the full nucleosomal context. Here, we employ molecular dynamics simulations to investigate the binding dynamics of the PHD finger and bromodomain of BPTF, both in solution and bound to either a histone H3 peptide or a full nucleosome.
View Article and Find Full Text PDFHistone post-translational modifications (PTMs) often serve as distinct recognition sites for the recruitment of chromatin-associated proteins (CAPs) for epigenome regulation. While CAP-PTM interactions have been extensively studied using histone peptides, this cannot consider the regulatory potential of multi-site binding on intact nucleosomes. To overcome this limitation, we applied Nucleosome Mass Spectrometry (Nuc-MS), a native Top-Down MS approach that enables controlled disassembly of intact CAP:nucleosome (CAP:nuc) complexes to provide a direct readout of the contained histone proteoforms.
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