Mapping Protein Ids
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10.8 years ago
mtyler.jason ▴ 120

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?

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

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10.8 years ago
Arnaud Ceol ▴ 860

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/

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

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

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10.8 years ago
jackuser1979 ▴ 890

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

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10.8 years ago
vj ▴ 520

GeneALaCart is another option and it accepts mixed identifiers.

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