I'm trying to classify ~500 proteins into groups. NOT using Gene Ontology (GO) terms. PANTHER protein classification works well, but ~20% have no classification.
Does anyone have suggestions for alternative ways to do this?
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@steveroyle in addition to the excellent suggestions so far, I’m very curious about two new papers where they clustered all 214 million predicted structures in the AlphaFold database.
I haven’t tried it yet, but I think structural clustering could be complementary to the sequence based clustering in Pfam or Interpro
@askennard that's a good idea, thanks!