When is AlphaFold 3 wrong? How can we tell? What should we do? This
video discusses cases where AlphaFold 3 was incorrect on our proteins.
Similar to recent posts on generative AI from many colleagues, an analysis of protein structure predictions that AlphaFold3 got wrong for our proteins, with speculations on why.
With the remarkable success of the AlphaFold prediction yielding
accurate structural models (Abramson et al., 2024), studies based
entirely on AlphaFold analysis have gained popularity. It is however
important to note that AlphaFold is fundamentally a statistical method
relying on existing experimental structures in the PDB database, and
it is not based on biophysical principles. Henc...