Laboratory of Mass Spectrometry (P. Konik)
Mass Spectrometry is a powerful tool in protein research. The combination of Liquid Chromatography (LC) with a tandem mass spectrometrer (MS/MS) can be used for:
- Protein identification by database search or De Novo sequencing
- Quantification of proteins in biological samples (expression levels)
- Identification of biologically relevant posttranslational modifications (PTM)
The Laboratory of Mass Spectrometry is a service facility of the Department of Molecular Biology.
The most common sample types processed in the laboratory are:
- protein solutions - isolated proteins, cell lysates, animal/human sera, etc.
- protein digests - solutions of proteins digested with proteolytic enzymes
- gel bands - from SDS PAGE, native electrophoresis, 2D gels, etc.
The laboratory uses the following instruments and techniques:
- Sample digestion with proteolytiv enzymes (Trypsin, S. aureus V8)
- UPLC (Ultra Performance Liquid Chromatography) separation of peptides on a
Nano Acquity UPLC (Waters)
- Peptide Mass Fingerprinting (PMF) and fragment analysis (MS/MS) on a Q-Tof Premier
Mass Spectrometer (Waters)
- Data processing and protein identification, quantification and PTM's using
the PLGS 2.3 software (Waters)
- For database searching, Uniprot and NCBI public proein databases are used;
custom databases are also possible
List of people of Laboratory: Mass-spec
List of publications of Laboratory: Mass-spec