Towards a complete map of the transmembrane proteome in Yeast and E.Coli

Funding source

Swedish Research Council - Vetenskapsrådet (VR)

Project Details

Start date: 01/01/2017
End date: 31/12/2020
Funding: 4060000 SEK


A complete structural knowledge of all proteins and their interactions in a ceulular compartment would provide an unprecedented detailed picture. Using this model it would be possible not only to ask what functions could occur but also what could not. Only a few years ago it would be completely unrealistic to even obtain the structure of all proteins in a compartment and even more unrealistic to obtain details about their interactions. However, it has recently been revolution in structure prediction for both individual proteins and complexes. The basis for this is the development of contact predictions methods using direct coupling information. Initially these methods could be used to predict the structure accurately for large protein families, but with our development of PconsC3 these methods are now available for thousands of protein families. In addition these methods can also be used to predict the structure of protein-protein interactions.

Here, we propose a long-term goal to provide a complete structural map of all protein and their interactions within the membrane of yeast and E.coli. To obtain our goal we need to improve: (i) Modeling of transmembrane proteins; (ii) Decoding protein-interaction networks in transmembrane proteins and (ii) Develop methods for structural modeling of membrane protein interactions.

Finally, we propose to use a combination of the methods developed here with experimental work to model the Sec-translocon and its interaction partner YfgM.

Last updated on 2017-05-10 at 07:43