I'm finding a web server (or standalone program) that allows the upload of a custom PDB for protein fold topology search.
Do you know any of them?
Actually I started off with Foldseek but have a question in mind:
how do I know if I have a novel fold? (because similarity search will often return partially similar hits).
Then, I tried to think of topology, as an illustration:
which simplifies structures to spatial arrangements of secondary structures (or topology).
I want to know if there's any database of protein fold topologies and tools for topology similarity search.
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