VMD-L Mailing List

From: Justin Gullingsrud (justin_at_ks.uiuc.edu)
Date: Mon Dec 02 2002 - 09:15:20 CST

Vlad,

Could you try the same thing using the alanin.psf/alanin.dcd files that come
with the VMD distribution? They're found in the proteins/ subdirectory in
either the tar.gz file or the installation directory (depending if you're
running Unix or Windows). If alanin works but your trajectory doesn't,
would it be possible for you to send us your parm and at least a piece of
the amber trajectory file? Also, what operating system are your running
VMD on?

Thanks,
Justin Gullingsrud

On Mon, Dec 02, 2002 at 10:05:44AM +0100, Vlad Cojocaru wrote:
> Dear Vmd users,
> If I load into vmd an amber trajectory and I create a representation
> hbonds the hydrogen bonds remain fixed during animation. They are not
> braking according to the movement of the donor and acceptor. Could
> somebody tell me why?
> Best wishes,
> vlad
>
> --
> Vlad Cojocaru
> Max Planck Institute for Biophysical Chemistry
> Department: 060
> Am Fassberg 11, 37077 Goettingen, Germany
> tel: ++49-551-201.1389
> e-mail: Vlad.Cojocaru_at_mpi-bpc.mpg.de
> home tel: ++49-551-9963204
>
> 

-- 
  Justin Gullingsrud        3111 Beckman Institute        217-244-8946
  I been dropping the new science, and I be kicking the new knowledge,
  and I'm seeing to a degree that you can't get in college.  -- b.boys