Re: [ccp4bb] How to overlap DNA

2012-05-03 Thread Junfeng Liu
Dear Guys, Thank you very much for your suggestions! I have tried Superpose from CCP4i as suggested by Arka& Nicolas. It works fine and can overlap the whole base as the LSQ in coot. The USF (lsqman suggested by Tim)has not been installed in my PC and I will try it and see after it has been install

Re: [ccp4bb] how to overlap DNA

2012-05-03 Thread Tim Gruene
-BEGIN PGP SIGNED MESSAGE- Hash: SHA1 Dear leo, how do you mean 'not perfect'? Superposition is not too difficult a task once you have defined the atoms you want to superpose and there should not be much variation. You could fine-tune your result with lsqman (USF program suite) which all

Re: [ccp4bb] how to overlap DNA

2012-05-03 Thread Nicolas Foos
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 me