Hi,
SIFTS provides mappings between PDB and UniProt (and a number of other
resources) - see pdbe.org/sifts
This file may contain the info you need:
ftp://ftp.ebi.ac.uk/pub/databases/msd/sifts/text/pdb_chain_uniprot.lst
--Gerard
On Mon, 31 Jan 2011, Sridharan, Sudharsan wrote:
Hi all,
(apologies if sounds off-topic)
I have a list of pdb id's of the form 1XXX:Y (that is code:chain id). Is
there a way to map this format to get uniprot id's for the entire list.
I can use ID mapping in Uniprot but it takes only the code and not the
above format. Although it gives the Uniprot id's for all the chains of
pdb's containing multiple chain id's/different proteins I'm trying to
avoid going back to the original list and manually delete hundreds id's
I'm not interested in! (for eg. If I give a code 1XXX which has two
chains A and B, I'm interested in getting the uniprot id of only A)
Any help is much appreciated.
Thanks.
Kind regards,
Sid.
----------------------------------
Sudharsan Sridharan, Ph.D.
Scientist I
Structural Bioinformatics, Protein Sciences, Lead Generation
Department of Antibody Discovery and Protein Engineering
MedImmune*
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