A cascading activity-based probe sequentially targets E1-E2-E3 ubiquitin enzymes.Mulder, M.P., Witting, K., Berlin, I., Pruneda, J.N., Wu, K.P., Chang, J.G., Merkx, R., Bialas, J., Groettrup, M., Vertegaal, A.C., Schulman, B.A., Komander, D., Neefjes, J., El Oualid, F., Ovaa, H.
(2016) Nat.Chem.Biol. 12: 523-530
- PubMed: 27182664
- DOI: 10.1038/nchembio.2084
- PubMed Abstract:
Post-translational modifications of proteins with ubiquitin (Ub) and ubiquitin-like modifiers (Ubls), orchestrated by a cascade of specialized E1, E2 and E3 enzymes, control a wide range of cellular processes. To monitor catalysis along these complex ...
Post-translational modifications of proteins with ubiquitin (Ub) and ubiquitin-like modifiers (Ubls), orchestrated by a cascade of specialized E1, E2 and E3 enzymes, control a wide range of cellular processes. To monitor catalysis along these complex reaction pathways, we developed a cascading activity-based probe, UbDha. Similarly to the native Ub, upon ATP-dependent activation by the E1, UbDha can travel downstream to the E2 (and subsequently E3) enzymes through sequential trans-thioesterifications. Unlike the native Ub, at each step along the cascade, UbDha has the option to react irreversibly with active site cysteine residues of target enzymes, thus enabling their detection. We show that our cascading probe 'hops' and 'traps' catalytically active Ub-modifying enzymes (but not their substrates) by a mechanism diversifiable to Ubls. Our founder methodology, amenable to structural studies, proteome-wide profiling and monitoring of enzymatic activity in living cells, presents novel and versatile tools to interrogate Ub and Ubl cascades.
Division of Immunology, Department of Biology, University of Konstanz, Konstanz, Germany.,Division of Protein and Nucleic Acid Chemistry, Medical Research Council Laboratory of Molecular Biology, Cambridge, UK.,Division of Cell Biology, Netherlands Cancer Institute, Amsterdam, the Netherlands.,Department of Molecular Cell Biology, Leiden University Medical Center, Leiden, the Netherlands.,Department of Structural Biology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA.,Howard Hughes Medical Institute, Memphis, Tennessee, USA.