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Sieber, S.A.* ; Gronauer, T.F. ; Eck, L.K.* ; Ludwig, C.*

A photocrosslinking probe to capture the substrates of caseinolytic protease P.

Angew. Chem.-Int. Edit., DOI: 10.1002/anie.202409220 (2024)
DOI PMC
: Postprint online verfügbar 08/2025
Protein homeostasis in bacteria is regulated by proteases such as the tetradecameric caseinolytic protease P (ClpP). Although substrates of ClpP have been successfully deciphered in genetically engineered cells, methods which directly trap processed proteins within native cells remain elusive. Here, we introduce an in situ trapping strategy which utilizes trifunctional probes that bind to the active site serine of ClpP and capture adjacent substrates with an attached photocrosslinking moiety. After enrichment using an alkyne handle, substrate deconvolution by mass spectrometry (MS) is performed. We show that our two traps bind substoichiometrically to ClpP, retain protease activity, exhibit unprecedented selectivity for Staphylococcus aureus ClpP in living cells and capture numerous known and novel substrates. The exemplary validation of trapped hits using a targeted proteomics approach confirmed the fidelity of this technology. In conclusion, we provide a novel chemical platform suited for the discovery of serine protease substrates beyond genetic engineering.
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Publikationstyp Artikel: Journalartikel
Dokumenttyp Wissenschaftlicher Artikel
Korrespondenzautor
Schlagwörter Caseinolytic Protease P (clpp) ; Chemical Proteomics ; Chemical Biology ; Substrate Traps ; Targeted Proteomics
ISSN (print) / ISBN 1433-7851
e-ISSN 1521-3773
Zeitschrift Angewandte Chemie - Internationale Edition
Verlag Wiley
Verlagsort Weinheim
Nichtpatentliteratur Publikationen
Begutachtungsstatus Peer reviewed
Institut(e) CF Metabolomics & Proteomics (CF-MPC)