Proteomics facilities – University of Copenhagen

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Copenhagen Plant Science Centre > Facilities > Proteomics facilities


Proteomics is the large-scale study of proteins, particularly their structures and functions. It comprises different methods, which aim to characterize the whole proteome (total protein content) of an organism and its function. Mass spectrometry became the method of choice in proteomics.  Coupled with different other methods, it allows to identify in a very short time several thousand proteins and posttranslational modifications, moreover enables the quantification of proteins or gives structural information.  Depending on the existing scientific knowledge of one topic this can be done in an untargeted way (shotgun proteomics) or a targeted way (e.g. multiple reaction monitoring).

Proteomics in plant science is still an evolving field. As photosynthetic and sessile organisms with the possibility for an extraordinary long life span, plants have to cope with their environment in a different way than mammalians. They have often evolved augmented protein families therefore, leading to new signaling pathways and challenges for proteomics. We are focusing in our facility on the changes in abundancies of proteins, identification of interaction partners by quantitative affinity purification mass spectrometry, identification of posttranslational modifications like phosphorylation and glycosylation in a targeted and untargeted way. 

Technical specification:
We are setting up Electron-transfer dissociation (ETD) Ion Trap Mass Spec equipment at Thorvaldsensvej 40, 1871 Frederiksberg C. It will use a combination of Electron Transfer Dissociation (ETD) and Proton Transfer Dissociation (PTR) and the combination of bottom-up CID or ETD and top-down ETD/PTR provides new methodologies for detailed protein characterization. The equipment is ideally suited to intact protein sequence analysis of small to medium sized proteins.

Terms of use
The facilities will be used by the core staff but are also available for external partners by appointment.

Department of Plant and Environmental Sciences, Thorvaldsensvej 40, 1871 Frederiksberg C.