Search for homologous binding partners with close or remote homologies
with your own sequences can also be addressed from the InterEvol database
http://biodev.cea.fr/interevol/
It seems you can upload the sequences there :
http://biodev.cea.fr/interevol/interevalign.aspx
Hope this can help
Marie-L
I know this isn't exactly your question, but it doesn't really take that
long to clone, express, and purify things nowadays--a few days, even? Also,
won't you be doing this anyway? So why not cut out the middle-man? Or,
better still, in your cloning downtime, do the software stuff.
JPK
On Thu,
Hi Careina,
In answer to your first question you could also try the iPATCH server:
http://portal.stats.ox.ac.uk/userdata/proteins/i-Patch/home.pl
This takes two reference structures for proteins that interact, and combined
with multiple sequence alignments of their homologs attempts to predict
Hi Careina,
For the first question, it sounds as though IBIS would do what you want:
http://www.ncbi.nlm.nih.gov/Structure/ibis/ibis.cgi. It will also try to
answer your second question, although sequences are compared to known
structures, so if your sequence is dissimilar to anything in the PDB i
Anybody know of any software out there that can predict potential interaction
sites between two proteins? They have been shown to interact via y2h screens
but I have no idea if they would interact on their own in vitro. Before I clone
them into a vector and purify them I would like some sort of
