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steineggerlab / foldseek

Foldseek enables fast and sensitive comparisons of large structure sets.
https://foldseek.com
GNU General Public License v3.0
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Possibility to foldseek against only a PDB-chain #212

Open jeversbioprodict opened 7 months ago

jeversbioprodict commented 7 months ago

So we can use the easy-search very nicely to search a PDB, like this foldseek easy-search <pdb_loc> <foldseek_db_loc> <output_loc>

However, I was wondering if it is possible also give the PDB chain as input (e.g. chain B), so we only foldseek for a part of the PDB.

realfenston commented 3 months ago

I suppose it will certainly work! Can you try modifying the input PDB and discard all those chains except chain B?