On 26/05/15 14:41, vijay srivastava wrote:
Dear All,
I want to superpose the nucleotide form one GTPase on to the
nucleotide of other GTPase in order to study
the interaction in the nucleotide binding pocket. I tried to superpose
but it is superposing on the basis of secondary structure as a
result both the nucleotides from two structutres are not properly
aligned. I want to superpose both the nucleotide, so that I will get
the matrix, which I want to apply on my desired strcuture and study
the interacting residues.
Do any one have the align program with you or any other program which
can solve this problem.
waiting for your kind response
regards
vijay
The WHAT IF software has an extensive superposition menu that allows you
to superpose anything on anything as long as those two 'anythings' can
be superposed (so don't superpose DNA on a protein helix...).
Unfortunately you will have to go through the hassle of installing WHAT
IF, and learning how to operate it also isn't trivial.
It is free, though.
Gert
