I am not sure about a web server, but if you use gesant to align one domain of the two structures, then fit the second domain of structure 1 to the second domain of the aligned structure 2; the polar angle Kappa will give you the amount of rotation between the second domains.
Eleanor On 21 April 2015 at 08:39, Mintu Chandra <mi...@iiserb.ac.in> wrote: > Dear All, > I am working with a protein containing tandem domains, connected with > 3-4 residue linker. I want to calculate the relative > motion/orientation of one domain with respect to the hinge region as > well as with respect to the other domain. Both the domains have very > less seq. identity (<20%). Please suggest some web server to calculate > the same. > > Thanks, > > Mintu >
