Fig. 1: PIP5Pase-V5 protein interaction network by XLMS.
From: Chromosome compartment assembly is essential for subtelomeric gene silencing in trypanosomes
A Diagram of disuccinimidyl suberate (DSS) cross-linker, its reaction with proteins, and cross-linked peptide detection by Liquid Chromatography-Tandem Mass Spectrometry (LC-MS/MS). RG1 and RG2, NHS-reactive groups 1 and 2. Created in BioRender. Cestari, I. (2025) https://BioRender.com/7g1lv3n. B-C) Silver-stained 10% SDS/PAGE B and Western blot C of immunoprecipitated V5-tagged PIP5Pase with α-V5 monoclonal antibodies (mAb) from a lysate of DSS cross-linked (XL) T. brucei bloodstream forms. Western blot probed with α-V5 mAbs. M protein marker, FT flow-through. D Number and types of cross-linked peptides detected by mass spectrometry. The box represents the interquartile range (IQR, 25–75%); the whiskers with minima and maxima show the range of smallest to largest values; the center line is the median, and the square symbol is the mean. E Cross-links of a subset of nuclear proteins (377 proteins and 918 cross-links) identified by PIP5Pase immunoprecipitation, organized by functional categories. The number of proteins in each category is indicated. F PIP5Pase cross-link interaction network. Edges represent cross-links, and nodes represent proteins. See Supplementary Data 3 for abbreviations and protein description. D–F show the combined XLMS data of 11 biological replicates with an FDR of 1%. Images in B and C are representatives of 11 experiments. Source data are provided as a Source data file.
