Personally, I can confirm that every yeast protein I work with that does not have a structure, when fed through alphafold produces absolute garbage with mean predicted errors on the order of ten or twenty angstroms and obvious nonsense in the structure.
Granted I work with a lot of repetitive poorly structured proteins which, in as model-system of an organism as yeast, are the only ones without structures and someone has to get unlucky… but still.
Personally, I can confirm that every yeast protein I work with that does not have a structure, when fed through alphafold produces absolute garbage with mean predicted errors on the order of ten or twenty angstroms and obvious nonsense in the structure.
Granted I work with a lot of repetitive poorly structured proteins which, in as model-system of an organism as yeast, are the only ones without structures and someone has to get unlucky… but still.
Have you been able to try the academic copy (rosettafold)?
Not yet, I used the Google project where they are posting predicted structures of every known human and yeast gene.
https://alphafold.ebi.ac.uk/
The example that made me laugh:
https://alphafold.ebi.ac.uk/entry/Q59W62