From: Peter Freddolino (
Date: Wed Sep 13 2006 - 17:34:34 CDT

I've attached a script that can do things like this; it contains an
accessory proc for drawing arrows, and then the proc procplot, which
draws arrows between the first and last frames of all atoms in your

Just call it by typing, in the tkcon,
source porcplot.tcl
porcplot mol gmol

mol is the molid of the molecule you want to operate on, and gmol is the
molid that will receive the graphics.

Zu Thur Yew wrote:
> Hi,
> I'm rather new to VMD, I was wondering if anyone has done anything
> similar...
> I have 2 crystal structures as 2 frames in a single pdb file and want to
> draw vectors/arrows from each CA atom that give a feel of the
> conformational transition.
> Any advice would be much appreciated!
> Thanks!