Rapid protein-protein interaction network creation from multiple sequence alignments with Deep Learning

AlphaFold2 (AF) can evaluate protein-protein interactions (PPIs) with high accuracy by finding evolutionary signals between proteins but comes with a high computational cost. Here, we speed up the prediction with AF for PPI network prediction 40x and reduce the disk space requirements 4000x for a set of 1000 proteins. Our protocol is easy to install and freely available from: https://github.com/patrickbryant1/SpeedPPI .