protein sequence for all organism

[Yvan Strahm]

Hello All,

I want to get the all the possible protein sequence for eukaryote.
I already downloaded nr from the NCBI ftp site, but i wish to have them sorted by organism, one folder per species. Currently I am downloading data from ftp://ftp.ncbi.nih.gov/genomes/X/protein/protein.fa.gz . Does this resource represent all the proteins sequences which are available in genbank? Or do you know a better way of getting a comprehensive data set?

Thanks for your help and time,
Cheers,
yvan

[Sebastian Becker]

Hi Yvan,

you can use 'www.webscipio.org' to get your protein of interest out of nearly all currently public available genomes. It is using BLAT (not BLAST) to find the homolog in your chosen species.

If you have questions how to use it please have a look in the faq of webscipio or just email me.

Cheers

Sebastian

[Yvan Strahm]

Hello Sebastian,

Thanks for the link, but i need to have "all" eukaryotic protein locally.
Cheers,
Yvan