TurboID-phosphoenrichment workflow protocol v1

This protocol is meant to accompany the manuscript "Probing the proteome-wide interactomes of Leucine-rich Repeat Kinases 1 and 2 and alterations in their phosphorylation activity" and its methods section. The protocol describes all steps of the experimental workflow starting from cell culture over TurboID, streptavidin enrichment and phosphopeptide enrichment to mass spectrometric analysis using Data-Independent acquisition (DIA)-based quantification and data analysis. The aim is to get a comprehensive dataset of interactors together with changed phosphosites of this interactome based on TurboID (Cho et al., 2020) and TiO2-based phosphoenrichment. All steps are described per sample.