How To Identify The Protein Domains Of A Specific Protein?

Question

[Omid]

Hi How can I find which kind of protein domains exist in my protein and have a good image as out put?I mean, have a picture which shows domains in a specific protein?Thanks

Answer 1

[KCC]

I've used: SCOP: http://scop.mrc-lmb.cam.ac.uk/scop/

CATH: http://www.cathdb.info/

Interpro: http://www.ebi.ac.uk/interpro/

SMART: http://smart.embl-heidelberg.de/

I remember finding SMART the prettiest.

Answer 2

[Niallhaslam]

Expasy have a cool tool for creating the domain diagrams: http://prosite.expasy.org/mydomains/ Perhaps after getting the data from http://pfam.sanger.ac.uk

[Shicheng Guo]

Is there any tutorial to use pfam + prosite together?

Answer 3

[Pavel Senin]

NCBI Search for Conserved Domains will do the job: http://www.ncbi.nlm.nih.gov/Structure/cdd/wrpsb.cgi