Look at the MSDpisa page:
http://www.ebi.ac.uk/msd-srv/prot_int/pistart.html
reached from http://www.ebi.ac.uk/msd/
It probably tells you much of what you wantt o know..
Eleanor
Mary Rorick wrote:
> Hi,
>
> I'm a evolution/genetics grad student trying to address protein
> questions. I'd like to figure out the easiest way to extract contact
> density (and possibly higher order contact traces in the future) from
> PDB files or SCOP domains. I'm wondering if there is a server or a
> list somewhere that might provide me with a measure of contact density
> or the contact matrix for the proteins I'm interested in. Or, are
> there any programs for analyzing PDB files that might make it easier
> for me to calculate this kind of thing?
>
> Thanks!
>
> Molly
>
> Mary "Molly" Rorick
> PhD Student
> Yale University Department of Genetics
>
>
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