Drug-drug similarity (DDS) and protein-protein similarity (PPS)

Question

[Elmira]

I am working on drug-target interaction prediction, and I need drug-drug similarity and protein-protein similarity datasets/similarity matrix. Does anyone know any tools to calculate them?

Thanks

[ali.hakimzadeh]

Hi dear Elmira, I was curious that if you already find the answer for the PPS part? I am also looking for These to enter my machine learning algorithm.