Get non redundant from Bacteria Archaea Fungi

Question

[David]

Hello, I have downloaded Non redundant protein database from NCBI. The thing is that i´m only interested in Bacteria, Archaea , Fungi . Is there a quick way to filter this file

Refseq is not suitable for me because some sequences are not yet in there.

Is there a quick way of doing this ??

Thanks,

[Chirag Parsania]

Hi,

get NCBI taxonomy id for each downloaded protein. Assign kingdom (Bacteria, Archea , Plant, Fungi , Matazoa etc) using taxonomy id. (Follow this thread to map kingdom information to taxid).