Comment by flobosg
2 years ago
> It ultimately relies on mapping sequence to structure.
So does every structural prediction method.
> if you give it a brand new fold with no relation to other folds, it cannot predict it
That will depend on the number of effective sequences, not the actual fold.
> I work in organisms that have virtually 0 sequence identity.
Then the problem is low sequence coverage, not the protein fold. On a side note, there are sensitive homology search protocols that rely very little on actual sequence identity.
So then based on your counter arguments to the OP, have they mapped the entire protein universe ? Or should it say, the “already known protein universe” ?
Neither the protein sequence nor structure spaces have been fully explored, and the sequence set of UniProt does not represent every single extant protein. My answer is “no”.