I have a list of protein pairs that interact with each other, which was obtained using yeast-two-hybrid.No 3D-structure or other deeper structural information.
My tutor wants me to find out the protein-protein interaction site of these pairs using some bioinformatic tools.
I know nothing about bioinformatics or structures,so is this possible to do? can anyone recommend some good programs that can predict PPI sites?
If you have the amino acid sequences of the interacting protein pairs, you can try the following web server:
http://cgmlab.carleton.ca/PIPE/
If you have amino acid sequence of each protein and want to analyse the PPI use following servers
1. http://cb.csail.mit.edu/cb/struct2net/webserver/
2. https://www.schrodinger.com/piper
3. https://cluspro.bu.edu/login.php (Best option available)
All the best !
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