VMD-L Mailing List

From: Knut Jørgen Bjuland (knutjorgen_at_gmail.com)
Date: Wed Sep 22 2010 - 11:19:53 CDT

  Hi

You could use ligand within 5 of protein in representation. But is there
any way to use a set to include selection from two different pdb files?

Cheers
Knut J

On 09/21/2010 06:17 PM, ban arn wrote:
> Dear VMD users,
>
> I would like to analyse the hydrogen bond network between protein and
> ligand in my trajectory.
>
> While the drawing HBond command works by mentioning proetin and the
> ligand name.
>
> Along the protein-ligand complex hydrogen bond network, it also shows
> protein internal hydrogen bonds.
>
> Is there any way to hide or mimic the internal hydrogen bond within
> the protein by preserving only protein-ligand hydrtogen bond contact.
>
> Kindly advice.
>
> Many Thanks
> Balaji
>