Mapping Protein Ids

Question

[mtyler.jason]

Hi all,

I have some protein ids from different databases. I want to map them. I mean, I want to know the corresponding proteins ids in UniProt from BioCyc. Is there anyway to do it?

[Ashutosh Pandey]

I am not sure if DAVID will be able to map all of them but you can try it. http://david.abcc.ncifcrf.gov/

Answer 1

[Arnaud Ceol]

Depending on the original database, you can use th euniprot mapping tool: http://www.uniprot.org/?tab=mapping , or PICR: http://www.ebi.ac.uk/Tools/picr/

[Hamish]

FWIW the portable URL for the UniProt Mapping service is: http://www.uniprot.org/mapping/. With documentation at:

• Web interface: http://www.uniprot.org/help/mapping, and
• REST service: http://www.uniprot.org/faq/28

The data behind the service is also available for download if you want to have a local copy of all the mappings.

Answer 2

[jackuser1979]

If you know the protein name you can search with protein name using

http://biocyc.org/gene-search.shtml or if have a sequence you can do blast search in biocyc http://biocyc.org/ECOLI/blast.html.

If you want to get the corresponding protein name in uniprot, you can do search with sequence by using blast search available in uniprot or use ID Mapping available in uniprot:, it converts all available database protein id to uniprot id

Answer 3

[vj]

GeneALaCart is another option and it accepts mixed identifiers.