Predicting the protein interaction landscape of a free-living bacterium with pooled-AlphaFold3

ABSTRACT: Accurate prediction of protein complex structures by AlphaFold3 and similar programs has been used to predict the presence of protein-protein interactions (PPIs), but this technique has never been applied to an entire genome due to onerous computational requirements and questionable utility. Here we present pooled-PPI prediction, a technique that dramatically improves the accuracy of genome-scale screens compared to a paired approach while simultaneously reducing inference time (~2-fold) and the number of jobs (~100-fold). We use this technique to predict the structure of all 113,050 pairwise PPIs in Mycoplasma genitalium using only 2,027 AlphaFold3 jobs. This unbiased and comprehensive dataset was highly predictive of known interactions, revealed a previously unappreciated but widespread

SUBMITTER: Horia Todor 

PROVIDER: S-SCDT-10_1038-S44320-026-00189-7 | biostudies-other |

REPOSITORIES: biostudies-other