Mass Spectrometry

The Mass Spectrometry laboratory offers a wide range of services, namely consultations in experiment design, sample preparation, data acquisition and data analysis. The instruments are designed to perform LC-MS/MS experiments, native mass spectrometry and hydrogen-deuterium exchange mass spectrometry. Our researchers are experienced in different kinds of mass spectrometric workflows, including top-down and bottom-up proteomic approaches, biotyping and study of protein complexes.

The laboratory equipment allows implementation of different tasks in proteomics:

  • Protein identification and quantification
  • Analysis of post-translational modifications (glycosylation, phosphorylation, etc.)
  • Biotyping, fast microorganism identification using MALDI whole-cell profile spectra, applicable for distinction of closely-related species or subspecies
  • Native mass spectrometry for investigation of tertiary and quaternary structure of proteins and its complexes
  • Hydrogen-deuterium exchange mass spectrometry for study of protein complex topology, dynamics and interactions

Currently, there are three mass spectrometers available:

Synapt G2-Si (Waters)
An electrospray ionization based quadrupole time-of-flight mass spectrometer with traveling wave ion mobility technology. The instrument has an option of 8kDa or 32kDa quadrupole mass analyzer for both peptide analysis and structural characterization of large protein complexes. Fragmentation capability of either CID or ETD is included. The mass spectrometer is connected to LC system with possibility to use 2D nano-LC for separation of complex peptide mixtures. The hydrogen-deuterium exchange connected to mass spectrometry can be applied to follow changes in structure and protein interactions.

timsTOF Pro
An electrospray ionization based quadrupole time-of-flight mass spectrometer with trapped ion mobility spectrometry (TIMS) technology. The instrument is connected to UltiMate 3000 RSLCnano system (Thermo) for separation of complex peptide mixture. A modified electrospray ionization source (CaptiveSpray, Bruker) provides stable and reproducible flow. High sensitivity of timsTOF Pro is used for a large-scale protein characterization, study of post-translational modifications and analysis of cross-linked proteins.

 Autoflex Speed (Bruker)

A MALDI based time-of-flight/time-of-flight mass spectrometer with an option of off-line nano-LC peptide separation for protein identification. The instrument is also used for biotyping of bacterial cultures or cell lines.