Protein peptide docking with AlphaFold

Protein peptide docking with AlphaFold

Title: Protein peptide docking with AlphaFold
SNIC Project: Berzelius-2021-48
Project Type: LiU Berzelius
Principal Investigator: Björn Wallner <>
Affiliation: Linköpings universitet
Duration: 2021-10-04 – 2022-05-01
Classification: 10601


Proteins are key players in virtually all biological events and accomplish their function as part of larger protein complexes. Unfortunately, compared to structure determination of individual proteins, structural characterization protein-protein interactions is much more difficult and is a major challenge in structural biology. For transient interactions it is even more difficult since the interactions only last for a short period of time they are hard to even detect, and thus even harder to study in molecular detail. Yet these transient interactions are key for regulating complex signalling networks that determine normal cell fate or lead to diseases including such as cancer, autoimmunity, cardiovascular and neurological diseases. In this proposal, we want to utilise the AlphaFold AI software for protein structure prediction developed by DeepMind to study protein-protein interactions involving dynamics and disorder.

Initially we will use the AlphaFold inference, later we might want to retrain it to tailor it our specific application areas.

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