© Research

Structural Mass Spectrometry and Proteomics


The Structural Mass Spectrometry and Proteomics Unit was created late 2012. It is part of the CNRS UMR3528 ” Structural biology of cellular processes and infectious diseases”. The Unit includes a research group, dedicated to the development of structural proteomics (top-down proteomics, cross-linking combined to MS, native MS and HX MS) and a proteomics platform (bottom-up proteomics).

Top-down proteomics is an emerging technology based on the analysis of intact proteins using very high-resolution mass spectrometry. It provides the highest molecular precision for analyzing primary structures and determining post-translational modifications by examining proteins in their intact state, leading to more straightforward and reliable results than the classical bottom-up approach based on protein enzymatic digestion. Top-down proteomics holds great promise in clinical research and in particular in clinical microbiology, a major research axis of the unit. 

Cross-linking combined to mass spectrometry is a powerful approach to address both the structure and composition of protein complexes. To improve the crucial stage of detection and characterisation of cross-linked peptides, we have developed a new generation of cross-linking agents based on click-chemistry. 

Native MS allows the structural investigation of protein complexes with the sensitivity, speed, unlimited mass range and accuracy of mass spectrometry. The exact mass of the proteins can be obtained, as well as the stoichiometry of the assembly, its conformation and topological arrangement of the subunits within the complex. 

HX (Hydrogen Exchange) MS is based on the different exchange rates of hydrogens in proteins. Exchange rates are a function of solvent accessibility and hydrogen bonding. HX MS can be used to monitor conformational changes in proteins, characterize protein folding pathways or protein-protein interactions. 



Orbitrap Fusion Mass Spectrometer • Thermo Fisher • Orbitrap Tribrid Fusion

The instrument is equipped with ETD and used either with a nanoUPLC Dionex for online fragmentation or with a Nanomate for direct infusion. Is was installed in the lab late 2013 and is mainly used […]

Synapt Mass Spectrometer • Waters • Synapt G2-Si HDMS

The Synapt G2-Si HDMS (with ETD and Ion Mobility) is equipped with a nanoAcquity UPLC and the HDX manager. It was installed in 2013. In 2015, a SID cell (Surface Induced Dissociation) has been installed […]

Orbitrap Velos Mass Spectrometer • Thermo Fisher • LTQ-Velos Orbitrap

The LTQ-Velos Orbitrap is equipped with a U3000 nanoLC (Dionex) and ETD. It is mainly used for the analysis of simple mixtures of proteins after trypsin digestion or PTM analysis using its ETD capabilities. 

Orbitrap Q-Exactive Mass Spectrometer • Thermo Fisher • Q-Exactive Plus & Q-Exactive HF

The Q-Exactive Plus and Q-Exactive HF are equipped with an easy-nLC (Proxeon) and have been installed in 2014/2015. They are used for:Protein identification (Data Dependent and Data Independent Analyses)Post translational modification (PTM) analysisQuantitative proteomicsTargeted quantification


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Phone: +33 1 40 61 38 59
Email: julia.chamot-rooke@pasteur.fr

25-28 Rue du Docteur Roux
75015, Paris