HADDOCK Score vs PRODIGY binding affinity in the case of mutations

The HADDOCK category is meant to discuss any HADDOCK-related issue. For general information about HADDOCK refer to HADDOCK – Bonvin Lab

If I were to choose one best mutation between two, mutation A has better HADDOCK Score but mutation B has better binding affinity obtained from PRODIGY, which aspect should I prioritize in choosing the best mutation?

None of the tools has been trained to predict ddG, which is what you are trying to do…

I would also try other tools like e.g.:


We also published iSee as ddG predictor:

and a review on the topic: