Different results compared to PrankWeb?

[AlexLam37]

This is the same/related issue I've previously asked in the prankweb page however I thought it was useful to ask here as well. https://github.com/cusbg/prankweb/issues/142#issue-2226798402

I am trying to use p2rank to predict pockets for a bunch of proteins but I noticed there are different results compared to the web server. I.e. if I go to the web server and use the "predicted structure" and input a uniprot ID, it seemingly gives different results compared to if I download the AF model from uniprot, and then run that on p2rank.

Similarly if I download the AF model and submit as custom structure to the web server, it gives same result as the standalone p2rank.

Is the web server over/underestimating pocket probabilities? Please see below for an example using A0A644EZV9

Using "predicted structure" on prankweb

Using "custom structure" on prankweb, same results as running standalone p2rank

[davidhoksza]

See the explanation at https://github.com/cusbg/prankweb/issues/142#issuecomment-2046043352 .

[rdk]

Closing since the question was answered in PrankWeb issue. If some confusion remains, let me know.