Protein Mass Spectrometry Service

Please visit our website on the Intranet for more details on our services.

The proteome is the entire set of proteins expressed by a cell at a certain time. The goal of proteomics (proteome analysis) is a comprehensive, quantitative description of protein expression and its changes under the influence of biological perturbations (Anderson and Anderson, Electrophoresis, 1998). Modern liquid chromatography-mass spectrometry (LC-MS)-based proteomics allow a large-scale identification and quantification of proteins from complex samples. With recent LC-MS systems, thousands of proteins can be analysed in a single LC-MS run.

The Protein Mass Spectrometry Service group performs large-scale proteomic analyses for all research groups at the MPIPZ. We provide a versatile proteomics platform for the institute including sample preparation, gel and liquid chromatography, sample digestion, mass spectrometry, and data analysis.

Our expertise includes:

  1. Analysis of single proteins (e.g., recombinant proteins)
  2. Identification and/or quantification of proteins in complex proteomes (Labelled- and label-free quantitative analysis, protein samples will be processed by in-solution digestion or FASP)
  3. Identification and/or quantification of post-translational modifications (PTM) of proteins (e.g., mapping PTM sites in purified proteins, phosphoproteomics with phosphopeptide enrichments)
  4. Protein pull-downs and interaction studies (e.g., identification of interaction partners by IP/AP-MS)

The core instruments of our facility include two LC-MS system:

  • Q Exactive Plus, hybrid quadrupole-Orbitrap (Thermo Scientific) coupled to Easy nLC1200
  • Q Exactive, hybrid quadrupole-Orbitrap (Thermo Scientific) coupled to Easy nLC1000

In addition to LC-MS systems, we are also equipped with an BN-PAGE analysis, 2D-DIGE equipment, Typhoon imager, Delta2D analysis software, and gel digestion robot.

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