New to Sequence Analysis with UniProt

Question

[batillia]

I'll just say it: proteins can confuse me. UniProt confuses me even more.

Okay, so I have a UniProt number for a specific protein. This protein has an important domain, X. I need to find the most closely related members of the X domain family, so I ran a BLAST on the entire protein and it listed a bunch of other proteins and their percent similarities. So I think I did that right... Or maybe I should just BLAST the domain sequence.

Next I need to produce a sequence alignment and identify the sequence signature for the X domain and I'm not sure how to go about this. I notice there is an align tab but it's not clickable.

After this I have to determine which protein has the shortest X domain using molecular weights. Also not sure if they list molecular weights on there or anything.

If anyone has any tips on how to navigate the site I would be very grateful. Sorry, I'm really new at this.

Answer 1

[Chrispin Chaguza]

Perhaps you should provide the UniProt number for the protein you're working on so that people can provide more detailed help.

Answer 2

[Elisabeth Gasteiger]

I recommend that you contact the UniProt helpdesk with your question. It would be helpful to hear also where exactly you see an align tab that is not clickable. Looking forward to your feedback to the helpdesk!

Answer 3

[cdsouthan]

The InterPro engine has pre-computed the relationships you are looking for, not only in UniProt but also Ensembl families, paralogs and othologs