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Allosteric activation of the SPRTN protease by ubiquitin maintains genome stability

ABSTRACT: The DNA-dependent protease SPRTN maintains genome stability by degrading toxic DNA-protein crosslinks (DPCs). To understand how SPRTN’s promiscuous protease activity is confined to cleavage of crosslinked proteins, we reconstitute the repair of DPCs including their modification with SUMO and ubiquitin chains in vitro. We discover that DPC ubiquitylation strongly activates SPRTN independently of SPRTN’s known ubiquitin-binding domains. Using protein structure prediction, MD simulations and NMR spectroscopy we reveal that ubiquitin binds to SPRTN’s protease domain, promoting an open, active conformation. Replacing key interfacial residues prevents ubiquitin-dependent activation of SPRTN, leading to genomic instability and cell cycle defects in cells expressing truncated SPRTN variants that cause premature aging and liver cancer in Ruijs-Aalfs syndrome patients. Collectively, our results reveal a novel ubiquitin-dependent regulatory principle in DNA repair that ensures SPRTN activity is deployed precisely when and where it is needed.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Homo Sapiens (human)

SUBMITTER: Petra Beli

LAB HEAD: Petra Beli

PROVIDER: PXD063921 | Pride | 2025-07-24

REPOSITORIES: Pride

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			Action	DRS
	20250328_QEP1_PBE_AS_Stingele_LFQ_HMCES_Ubiquiton_K48_rep1.raw	Raw
	20250328_QEP1_PBE_AS_Stingele_LFQ_HMCES_Ubiquiton_K48_rep2.raw	Raw
	20250328_QEP1_PBE_AS_Stingele_LFQ_HMCES_Ubiquiton_K48_rep3.raw	Raw
	20250328_QEP1_PBE_AS_Stingele_LFQ_HMCES_Ubiquiton_K63_rep1.raw	Raw
	20250328_QEP1_PBE_AS_Stingele_LFQ_HMCES_Ubiquiton_K63_rep2.raw	Raw

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