Biological and Medicinal Chemistry

Profiling the Proteome-Wide Selectivity of Diverse Electrophiles

Abstract

Targeted covalent inhibitors are powerful entities in drug discovery, but their application has so far mainly been limited to addressing cysteine residues. The development of cysteine-directed covalent inhibitors has largely profited from determining their proteome-wide selectivity using competitive residue-specific proteomics. Several probes have recently been described to monitor other amino acids using this technology and many more electrophiles exist to modify proteins. Nevertheless, a direct, proteome‑wide comparison of the selectivity of diverse probes is still entirely missing. Here, we developed a completely unbiased workflow to analyse electrophile selectivity proteome‑wide and applied it to directly compare 54 alkyne probes containing diverse reactive groups. In this way, we verified and newly identified probes to monitor a total of nine different amino acids as well as the N‑terminus proteome‑wide. This selection includes the first probes to globally monitor tryptophans, histidines and arginines as well as novel tailored probes for methionines, aspartates and glutamates.

Content

Thumbnail image of manuscript_Zanon_et_al.pdf

Supplementary material

Thumbnail image of Supplementary_Information_Zanon_et_al.pdf
Supplementary Information Zanon et al
Thumbnail image of Zanon_et_al_Supplementary_Table_1.xlsx
Zanon et al Supplementary Table 1
Thumbnail image of Zanon_et_al_Supplementary_Table_2.xlsx
Zanon et al Supplementary Table 2
Thumbnail image of Zanon_et_al_Supplementary_Table_3.xlsx
Zanon et al Supplementary Table 3
Thumbnail image of Zanon_et_al_Supplementary_Table_4.xlsx
Zanon et al Supplementary Table 4