Joana Pereira

This study identifies TagF as a checkpoint protein that coordinates spike-loading in T6SS assembly by preventing premature sheath formation and interacting with Hcp and TagZ.

The paper predicts structures for 27,000 viral proteins using AlphaFold2, revealing conserved folds across viruses infecting bacteria, archaea, and eukaryotes and identifying a new antiviral toxin-antitoxin system.

This paper introduces an embedding-based alignment method using protein language models to detect structural similarities in the twilight zone, outperforming existing approaches without training.

This study evaluates AlphaFold2's accuracy in predicting outer membrane beta-barrel structures, showing high accuracy even for novel topologies without templates.

The paper shows that β-propellers in major lineages are formed by amplification of single blades, with recent amplification events producing nearly identical blades.

This paper evaluates CASP14 models for molecular replacement using a new metric, reLLG, which is independent of diffraction data and shows AlphaFold2 models outperform others.

The paper analyzes the evolutionary relationships of VCBS-like β-propellers, showing they form a distinct supercluster with integrins and tachylectins, separate from WD40 and Asp-Box β-propellers.