Founded in 2002 as a core facility of four collaborative research centres (SFB413, 594, 596 and Transregio 5) the Protein Analysis Unit (Zentrallabor für Proteinanalytik, ZfP) has matured to become the first core facility of the Biomedical Centre (BMC), which renders services beyond the groups of the founding member laboratories. The ZfP is set up as a recharge facility to cover running costs. Currently (Nov. 2012) the ZfP operates one MALDI-TOF, one Quadrupole-TOF hybrid mass spectrometer and two high-resolution (FWHM > 60.000) mass spectrometers that were installed in April 2008 and in February 2011. The ZfP is furthermore equipped with a capillary electrophoresis system, an off-gel analyser and a stand alone capillary HPLC system that allow an elaborate pre-fractionation of samples to enable the ZfP to get a more thorough analysis of very complex mixtures. All measurements of the core facilitiy are searched against public databases using various search algorithms (MASCOT, SEQUEST, X!Tandem and Andromeda). Quantifications are done using MaxQuant, Xcalibur and various software tools developed in house. Since 2015 the ZfP is located at the Protein Analysis unit of the LMU BioMedical Center in Martinsried-Großhadern.