Fast mapping from PDB id to CATH domains

Question

[jsylee0528]

I have around 30k PDB ids that I want to map to their corresponding CATH domains. Is there an existing database that I can download that already contains PDB id's CATH domains in a spreadsheet format preferably. Or is there a quick way to do batch mapping ?

Answer 1

[Mensur Dlakic]

I appreciate the reasons why you asked the question in this forum, but in most cases going to the primary database will be the best source for these questions.

http://www.cathdb.info/download

It wouldn't surprise me if a little bit of digging through the PDB site will uncover their own CATH mapping.

There is a way to do a quick mapping by sequence (through HMMs), but it depends what kind of accuracy you are looking for. Lastly, not all PDB structures have CATH assignments.