From: Maxim Belkin (mbelkin_at_ks.uiuc.edu)
Date: Mon Mar 03 2014 - 15:49:00 CST

You can easily write down coordinates of any selection in xyz format:

    $selection writexyz output_file.xyz

-Maxim

On Mar 3, 2014, at 3:25 PM, Dawid das <addiw7_at_googlemail.com> 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