Few interaction partners of human calpain-5/CAPN5 have been identified or proposed. This project was designed to identify candidate interaction partners of CAPN5 in SH-SY5Y neuroblastoma cells. We utilized sequential window acquisition of all theoretical mass spectra (SWATH‐MS) for proteomic analysis of samples resulting from co-immunoprecipitation with full-length CAPN5-3×FLAG. The bait was catalytically inactive due to a C81A mutation.