RMS pairwise calculation

[Simon Andrews]

Mario Garcia wrote:
> 
> Dear all:
> We have 3 superimposed protein conformations and we would need to
> calculate the RMS deviation between pairs of residues. Any idea?
> Thank you so much in advance for the reply.

Swiss PDB viewer (www.expasy.ch/spdbv) can certainly do this.  Simply
select the residues you wish to compare, then use Tools -> Calculate
RMS.  I imagine most modelling programs have a similar facility.

Simon.