Fuck AI

Ad1, yeah, maybe your proteins and at superficial investigation. But my experience with the oligomeric interfaces, when having structures that are not publicly accessible and therefore can't be part of the training, was not so great.

Ad2, I am not talking about unstructured proteins. I am talking about structural features that have little to no precedence in public databases.

Ad3 Most models will be never validated by experimental structure elucidation. That's the whole point of those models. To be able to get some information without having to do an undoable amoun high effort experiments. Sure, the end result will be verified but model quality matters, it is the factor that determines the success rate of the in-silico part of the experiments, ie how many candidates have to be screened on average to find sufficiently improved candidates.

Attention network based models are fine but they are not the golden calf that some are selling it either. You put it yourself, models are just models. Quality is not homogoenous though. Like I said, models for monomers are generally more credible.