© UDE/Bettina Engel-Albustin

Project Area B - Chemical Biology

Dr. Malte Gersch

Department of Chemistry and Chemical Biology

Technische Universität Dortmund

Phone: +49 231 133 2943
Email

Chemical tools to dissect roles of deubiquitinases in cell state transitions

The Ubiquitin system controls the activities and amounts of a plethora of proteins within eukaryotic cells, and thereby regulates critical cell state transitions including those during the cell cycle, DNA damage repair, mitophagy and inflammation. The post-translational modification of substrate proteins with the small protein Ubiquitin is catalysed by E1, E2 and E3 enzymes. Their activity is counteracted by about 100 dedicated isopeptidases, termed deubiquitinases (DUBs). DUBs thus play important roles in determining the strength of Ubiquitin-dependent signalling processes, and as such their activity is tightly regulated. In addition to their catalytic activities, non-catalytic activities have been reported for several DUBs. However, the underlying molecular mechanisms and roles which DUBs play in many biological pathways are still poorly understood. This project will expand the available small molecule toolbox for DUBs which will allow to dissect their multifaceted roles in Ubiquitination-controlled cell state transitions in close collaboration with other projects within this CRC.

Project Members

Publications

    Journal articles

  • Kazi, Nafizul Haque; Klink, Nikolas; Gallant, Kai; Kipka, Gian-Marvin; Gersch, Malte
    Chimeric deubiquitinase engineering reveals structural basis for specific inhibition of the mitophagy regulator USP30
    In: Nature Structural & Molecular Biology, Vol. 32, 2025, Nr. 9, pp. 1776 – 1786
  • Wendrich, Kim; Gallant, Kai; Recknagel, Sarah; Petroulia, Stavroula; Kazi, Nafizul Haque; Hane, Jan André; Führer, Siska; Bezstarosti, Karel; O’Dea, Rachel; Demmers, Jeroen; Gersch, Malte
    Discovery and mechanism of K63-linkage-directed deubiquitinase activity in USP53
    In: Nature Chemical Biology, Vol. 21, 2025, Nr. 5, pp. 746 – 757
  • Banerjee, Sudakshina; Cakil, Zeyneb Vildan; Gallant, Kai; van den Boom, Johannes; Palei, Shubhendu; Meyer, Hemmo; Gersch, Malte; Summerer, Daniel
    Light-Activatable Ubiquitin for Studying Linkage-Specific Ubiquitin Chain Formation Kinetics
    In: Advanced Science, Vol. 12, 2025, Nr. 6, 2406570
  • Führer, Siska; Gallant, Kai; Kaschani, Farnusch; Kaiser, Markus; Janning, Petra; Waldmann, Herbert; Gersch, Malte
    Small Molecule-Induced Alterations of Protein Polyubiquitination Revealed by Mass-Spectrometric Ubiquitome Analysis
    In: Angewandte Chemie International Edition, Vol. 64, 2025, Nr. 32, e202508916
  • Schmidt, Mirko; Grethe, Christian; Recknagel, Sarah; Kipka, Gian-Marvin; Klink, Nikolas; Gersch, Malte
    N-Cyanopiperazines as Specific Covalent Inhibitors of the Deubiquitinating Enzyme UCHL1
    In: Angewandte Chemie International Edition, Vol. 63, 2024, Nr. 12, e202318849
  • O’Dea, Rachel; Kazi, Nafizul; Hoffmann-Benito, Alicia; Zhao, Zhou; Recknagel, Sarah; Wendrich, Kim; Janning, Petra; Gersch, Malte
    Molecular basis for ubiquitin/Fubi cross-reactivity in USP16 and USP36
    In: Nature Chemical Biology, Vol. 19, 2023, Nr. 11, pp. 1394 – 1405
  • Zhao, Zhou; O’Dea, Rachel; Wendrich, Kim; Kazi, Nafizul; Gersch, Malte
    Native Semisynthesis of Isopeptide-Linked Substrates for Specificity Analysis of Deubiquitinases and Ubl Proteases
    In: Journal of the American Chemical Society: JACS, Vol. 145, 2023, Nr. 38, pp. 20801 – 20812
  • Grethe, Christian; Schmidt, Mirko; Kipka, Gian-Marvin; O’Dea, Rachel; Gallant, Kai; Janning, Petra; Gersch, Malte
    Structural basis for specific inhibition of the deubiquitinase UCHL1
    In: Nature Communications, Vol. 13, 2022, Nr. 1, 5950
  • Preprints

  • Klink, Nikolas; Urban, Sebastian; Seier, Johanna A.; Adhikari, Bikash; Schwalm, Martin P.; Müller, Juliane; Dorsch, Madeleine; Kaschani, Farnusch; Koch, Johannes; Führer, Siska; Kaiser, Markus; Schulze, Nina; Knapp, Stefan; Wolf, Elmar; Paschen, Annette; Grüner, Barbara M.; Gersch, Malte
    Targeted degradation of USP7 in solid cancer cells reveals disparate effects of deubiquitinase inhibition vs. acute protein depletion
    2025