VMD-L Mailing List

From: Ashar Malik (asharjm_at_gmail.com)
Date: Tue Jul 31 2018 - 19:40:09 CDT

The subject of the mail is asking for rmsf where as in the email you say
rmsd. So which one?

Rmsd and rmsf can both be obtained using the "measure" command.

Remember to remove translational and rotational effects from your system
prior to their use.

Write back if this doesn't help and an example "script" can be provided.

On Aug 1, 2018 00:06, "Sasthi Charan Mandal" <sasthi.phys_at_gmail.com> wrote:

I want to calculate the rmsd of each base pair of dna over a specified
time.. So if anyone have the script I will be thankful to you if you
provide me.
Thanks