AMBER Archive (2008)

Subject: Re: AMBER: Using VMD to calculate end-to-end distance?

From: Keith Van Nostrand (kifvan_at_yahoo.com)
Date: Mon Jan 14 2008 - 21:35:42 CST

Lili,
   
    You can measure distances between atoms by pressing 2 (or going on the menu Mouse, Label, Atom (2) ) , and then clicking on two atoms. The distance will show as text in the middle. Hope that helps.
   
  Sincerely,
  Keith Van Nostrand

Lili Peng <lpeng_at_ucsd.edu> wrote:
  Hi,

I have a question regarding using VMD. Does anyone know how to calculate end-to-end distance in VMD from a PDB file? Currently I do not have a topology or trajectory file, only the PDB.

Thanks in advance,
Lili

       
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