Custom domain about lollipops HOT 2 CLOSED

Does the -U option to provide uniprot ID give the wrong domain info also? I
find it strange that pfam would be significantly different from uniprot.

Jeremy

On Tue, Feb 3, 2015 at 10:28 AM, jhchung [email protected] wrote:

Hi,

You've got an interesting tool here. I'm testing it out but have come
accross an issue with the annotations.

For one of the proteins that I am interested in, the annotations from pfam
are different from other published sources including uniprot and published
articles. Is there a way to add custom domain annotations? For example, to
use a tab delimited text file describing the different domains as an input?

Thanks,
-Jonathan

—
Reply to this email directly or view it on GitHub
https://github.com/pbnjay/lollipops/issues/6.

from lollipops.

The protein I am looking at is RIPPLY3. I used -U P57055 and had no trouble getting the annotations from pfam.

In uniprot, there are two domains (Ripply and WRPW) but in pfam, there is only a Ripply domain with some disordered or low complexity domains but no WRPW domain. Also, the start and stop positions of the ripply domain is very different in the two databases.

It is strange and I don't think it's a problem with the program itself.

from lollipops.