[BiO BB] help with bacterial protein sequence comparisons

[Ketil Malde]

Phoebe Rice <price at uchicago.edu> writes:

> Blast gives me pages of 99% identical proteins (mostly from other
> S. aureus strains), and I'm too lazy to pick "representatives"
> manually from further down the list.  What is the best way to get a
> list of related proteins that are all, say, <90% identical to other
> proteins in the list? 

I don't know if these are in UniProt, but if they are, you can search
the UniRef 90 (or 50) database, which consists of proteins with at most
90 (50) percent similarity.

-k
-- 
If I haven't seen further, it is by standing in the footprints of giants