VMD-L Mailing List

From: snoze pa (snoze.pa_at_gmail.com)
Date: Wed Sep 14 2011 - 15:56:13 CDT

Thanks Axel for such a wonderful website.
S

On Wed, Sep 14, 2011 at 1:38 PM, Axel Kohlmeyer <akohlmey_at_gmail.com> wrote:

> On Wed, 2011-09-14 at 11:48 -0500, snoze pa wrote:
> > Dear VMD Users,
> >
> > I want to connect two residues using LINK or a patch command. They
> > are 10A apart in pdb file but I want to connect them using C-N bond.
> > How can I connect them? or how to use LINK or PATCH command in vmd or
> > psfgen
>
> psfgen is overkill in this case. just load your psf file and
> a matching coordinate file and use the addbond command from
> the topotools plugin to add a specific bond.
>
> http:://
> sites.google.com/site/akohlmey/software/topotools/topotools---documentation#TOC-addbond-id1-id2-
>
> and then save the modified .psf file. that should do the trick.
>
> cheers,
> axel.
>
>
> > thank you
> >
> > S
>
>
>