From: Maxim Belkin (
Date: Mon Mar 03 2014 - 15:37:36 CST

Hi Dawid,
This sounds like a job for “measure fit” command. Take a look at its documentation and let us know if you need further assistance:


On Mar 3, 2014, at 3:25 PM, Dawid das <> wrote:

> Dear vmd specialists,
> I want to do following thing.
> Let's say I have a reference structure and 50 others.
> Now I want to align those 50 on the reference structure.
> When I do it I want to save new xyz coordinates for 50
> transformed structures. Is it possible at all?
> How do I specify that my first structure is actually the reference one?
> Thanks in advance,
> Dawid Grabarek