What’s the answer? (protein domain architecture)

BioStar is a site for asking, answering and discussing bioinformatics questions. We are members of the community and find it very useful. Often questions and answers arise at BioStar that are germane to our readers (end users of genomics resources). Every Thursday we will be highlighting one of those questions and answers here in this thread. You can ask questions in this thread, or you can always join in at BioStar.

This week’s highlighted question:

How can I determine whether two proteins have the same multi domain architecture?

How can I determine whether two proteins have the same multi domain architecture? For example, if I do a BLAST search for proteins with high alignment scores, what can I do with the resulting list of proteins to determine which of them have, and which of them do not have, the same multi domain architecture?

Doug

I gave an answer for this question describing one of our favorite tools, SMART. I have always loved the way that domain representation was so visual and clear, and had all sorts of other things you could do to learn about that domain and related proteins. And my answer got accepted! Have a look at some of the other ideas people had as well.

You can learn about SMART from our tutorial, which is available for individual purchase or through a subscription.