v-IMG_4893MALDI-TOF MS (matrix assisted laser desorption ionization time-of-flight MS) is a mass spectrometry method that is widely used in protein and glycan research. The new generation MALDI mass spectrometers allow a precise mass determination of proteins, peptides and glycans as well as the fragmentation (=MS/MS) of these to derive protein or peptide sequence data. This increases the confidence in protein or peptide identification significantly.

MALDI-MS is perfectly suited for the detailed structural characterization of proteins, including the analysis of post-translational modifications (PTM) and for the analysis of glycan pools.

For the analysis of the MALDI MS and MS/MS data sets, Protagen Protein Services has developed algorithms that allow getting more information out of the mass spectra.

MALDI-MS can be employed in a wide range of biochemical applications ranging from peptides to proteins and glycans, such as:

  • determining the molecular weight of intact proteins. This can be used to confirm the identity of a protein, screen for protein modifications or to use the molecular weight for the calculation of the mass extinction coefficient or mass concentration.
  • Identifying proteins, e.g. after 1D or 2D gel electrophoresis as well as in the in-depth characterization of proteins and PTMs.
  • MALDI-TOF MS can be used for the proof of identity according to ICHQ6B.


The sample is mixed with a matrix, crystallized on a MALDI target and ionized using a UV laser system. The ions are then detected in a time-of-flight analyzer. The data sets are then imported into a relational database for further data reprocessing and evaluation.

MALDI MS is used or can complement a large range of further analysis such as:

As a complementary mass spectrometry approach, Protagen offers liquid chromatography coupled with electrospray ionization MS (LC-ESI-MS and LC-ESI-MS/MS). For N- and C-terminal sequencing of proteins, we recommend the MALDI-ISD technique.

Protagen’s protein analysis package is designed to encompass the requirements of ICH guidelines (in particular ICH Q6B).


Your contact for MALDI-TOF Mass Spectrometry in Protein Analytics at Protagen Protein Services GmbH

burkhard fleckenstein

Dr. Burkhard Fleckenstein

Director Operations 
Our business development team will be happy to assist you with your project.

Phone: +49 7131 74 50 40
Email: salesproteinservices@ProtagenProteinServices.com