Dear Leo,
I use "*superpose*" included in the ccp4 programms suite. You can manage
a lot of parameters.
In my case for exemple, i use the "superpose specified atoms/residues"
I defined the model which move et the one wich is the reference.
I precise the residues range (in DNA case residue means you base).
And it work very fine.
But your own method depend of what you want to do with your overlaped
structure.
Hope to help you.
Nicolas
Le 03/05/12 03:18, Junfeng Liu a écrit :
Dear All,
Does anybody has the experience to overlap DNA in the protein
complex? I have tried the LSQ in Coot and it works ok but not
perfectly. Could you please tell me a better way to do that?Or can
Coot be used to overlap DNA/RNA on their back bone by LSQ or SSM ?
At the same time, are there some software or servers can be used to
search the "homology DNA " in the database like the Dali on
protein?
Thanks in advance!
Best wishes
leo
