VMD-L Mailing List

From: Vlad Cojocaru (Vlad.Cojocaru_at_mpi-bpc.mpg.de)
Date: Tue Dec 03 2002 - 04:05:59 CST

Hi!
   I fixed the problem. There was something wrong with the trajectory
created. I created it again and it worked. I also tested other
trajectories and there was no problem with h bonding.
   Thanks a lot for the reply,
best wishes,
vlad

Justin Gullingsrud wrote:

>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
>>
>>
>>
>>
>
>
> 

-- 
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