Similar tool as NN for AF-similarity?
|Opened on:||Friday, February 18, 2022 - 11:21|
|Last modified:||Monday, February 21, 2022 - 15:49|
The Neural Network is a helpful tool for improving the AlphaFold confidence (even though for me I try to use a designflow which typically gives >80% AF values without using NN). So it highlights regions where you should mutate.
But AF-similarity seems to be a bit difficult to control/optimize. The best way for me to improve this seems for now to load the prediction and work with that. But that screws up a lot of things (especially the score) and it takes some effort to fix it again while keeping the good AF-sim value.
Therefore do you think it's possible to have a similar tool like the NN that shows especially similarity issues? So regions that should be changed to improve similarity? Or should I try to load the prediction as guide and do modifications manually to bring them in line? Haven't tried that yet.
Anyway, if you think such a tool would be possible then I would be interested. And thx again for the NN tool which seems to show pretty reliably (as long as the design is not totally screwed up) regions that are problematic for AF-conf!