Abstract
In advanced castration resistant prostate cancer (CRPC), mutations in the DNA damage response (DDR) gene ataxia telangiectasia mutated (ATM) are common. While poly(ADP-ribose) polymerase inhibitors are approved in this context, their clinical efficacy remains limited. Thus, there is a compelling need to identify alternative therapeutic avenues for ATM mutant prostate cancer patients. Here, we generated matched ATM-proficient and ATM-deficient CRPC lines to elucidate the impact of ATM loss on DDR in response to DNA damage via irradiation. Through unbiased phosphoproteomic screening, we unveiled that ATM-deficient CRPC lines maintain dependence on downstream ATM targets through activation of ATR and DNA-PKcs kinases. Dual inhibition of ATR and DNA-PKcs effectively inhibited downstream γH2AX foci formation in response to irradiation and radiosensitized ATM-deficient lines to a greater extent than either ATM-proficient controls or single drug treatment. Further, dual inhibition abrogated residual downstream ATM pathway signaling and impaired replication fork dynamics. To circumvent potential toxicity, we leveraged the RUVBL1/2 ATPase inhibitor Compound B, which leads to the degradation of both ATR and DNA-PKcs kinases. Compound B effectively radiosensitized ATM-deficient CRPC in vitro and in vivo, and impacted replication fork dynamics. Overall, dual targeting of both ATR and DNA-PKcs is necessary to block DDR in ATM-deficient CRPC, and Compound B could be utilized as a novel therapy in combination with irradiation in these patients.

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Data availability
The raw phosphoproteomic data in this manuscript can be accessed with accession number # PXD050955 at https://massive.ucsd.edu/ProteoSAFe/index.jsp.
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Acknowledgements
We would like to thank Dr. Ganesh Raj for his guidance and oversight on this project. We would also like to thank Dr. Kathryn O’Donnell for her support and mentorship throughout this project.
Funding
This work was supported by the Department of Defense (DOD) grant W81XWH-21-1-0687 and the National Cancer Institute (NCI) at the National Institutes of Health grant R01CA276058. MH is supported by NCI grant 1F30 CA281268-01. JMD is supported by the Masonic Cancer Center at the University of Minnesota and by the NCI grant R01CA269801. ZES was supported by DOD Prostate Cancer Program for funding grant W81XWH-20-1-0070. The authors would like to acknowledge the outstanding service of the Quantitative Light Microscopy Shared Resource of the Harold C. Simmons Comprehensive Cancer Center, supported in part by an NCI Cancer Center Support Grant, 1P30 CA142543-01. RK is a CPRIT Scholar in Cancer Research of the Cancer Prevention and Research Institute of Texas (CPRIT) and a John L. Roach Scholar in Biomedical Research of the Endowed Scholars Program at UT Southwestern Medical Center.
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MH, LY, and RK conceived the project and designed experiments. MH, AW, XH, WMC, AJD, and CG. performed in vitro experiments and MH analyzed the data. MH and KP performed animal experiments. ZES and JMD assisted with phosphoproteomic data generation and analysis. AM and PL assisted with fiber assays. MH wrote the manuscript with input from all authors.
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JMD has no conflicts relevant to this work. However, he serves as a consultant and Chief Scientific Officer of Astrin Biosciences. The interest related to JMD. has been reviewed and managed by the University of Minnesota in accordance with its Conflict-of-Interest policies. All other authors declare no competing interests.
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All methods in this manuscript were performed in accordance with the relevant guidelines and regulations. All animal work was done under the supervision of the Animal Resource Center (ARC) and approved by the Institutional Animal Care and Use Committee (IACUC) under the protocol number 2021-103107.
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Hofstad, M., Woods, A., Parra, K. et al. Dual inhibition of ATR and DNA-PKcs radiosensitizes ATM-mutant prostate cancer. Oncogene 44, 1746–1760 (2025). https://doi.org/10.1038/s41388-025-03343-x
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DOI: https://doi.org/10.1038/s41388-025-03343-x


