VMD-L Mailing List

From: Chola Regmi (cholaregmi_at_gmail.com)
Date: Wed Mar 19 2014 - 16:29:06 CDT

Dear VMD users,
I want to write a dcd/pdb or xyz file of my selection (updated every frame)
in each frame from my NAMD velocity dcd file. Since my selection is like
"water and within 3.5 A of protein". But NAMD velocity dcd file contains
only velocity components of each atoms and selection does not work. Is
there any way VMD can be used to extract the velocity of selected atoms
only using velocity dcd file or combining with trajectory dcd file.
I want to analyse the velocity of water molecules in different solvation
layers.

Thank you.
Chola