[Protein-analysis] Re: mapping KEGG ID to CCD

darked via proteins%40net.bio.net (by darek.kedra from gmail.com)
Wed Apr 1 19:28:46 EST 2009


On Apr 1, 7:42 pm, mukhi... from gmail.com wrote:
> Hello,
> Is anyone familiar with a process to map KEGG IDs to CCDs? For
> example:http://www.genome.jp/dbget-bin/www_bget?cpd:C00389
>
> Some KEGGs have links to the CCD, as you can see below PDB-CCD: QUE
> (the CCD uses a 3 letter abbreviation). So besides getting lucky in
> browsing the KEGG db and finding some CCD links, are there any other
> databases/websites/applications that link the two? Thank you.
>
> ps: this is for ~1000 KEGG ids

Just two possible starting points, not tested solutions:

1) Check out this KEGG data file:
ftp://ftp.genome.jp/pub/kegg/ligand/compound/compound

if it contains what you need (CCD ids in separate rows) one can do
some scripting and parse the file.


2) SRS system at EBI
http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz

darked



More information about the Proteins mailing list