Joe and Angel,
In my case, I have only amino acid sequences for each protein from the lab.
Lijo
On Fri, Apr 18, 2008 at 6:39 PM, Angel Herraez <[EMAIL PROTECTED]> wrote:
> lijo skb wrote:
>
> > I have two set of protiens, 1) Hub- Protiens those can intract more
> > than two nuber of proteins. Usually in a PPi network, a protien will
> > act as hub to connect other protiens.
> > 2) Non-Hub-Proteins those have only less intracion profile than the
> > Hub proteins.
>
>
> Sorry, I can't imagine how you can do that automatically. You could
> work out the distance between centers of each protein, but that does
> not necessarily mean "interaction".
>
> Do you have a single coordinates file where all the proteins are
> included? What parameter would you use to define contact or
> interaction?
>
>
>
>
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