VMD-L Mailing List

From: m.raviprasad_at_ndsu.edu
Date: Wed Aug 11 2010 - 12:55:52 CDT

Hi

You have to have coordinate file [ PDB] and structure file [ PSF ] to
visualize any molecular model correctly. PDB file gives you only
coordinates and it does not have connectivity. Therefore try to make PSF
file for your model and load both [ PDB and PSF ] to the VMD.

Note : To make PSF you could use VMD plugins.

Ravi

>
> Hello,
>
>
>
> I'm working on adsorption of dioxins into zeollite.
>
> All the structures are built with Material studio and then exported (.pdb)
> to be visualized with VMD.
>
> However, the structure is different. Some bonds are missing and the nature
> of some atoms is different.
>
> Can you help ???
>
> Thanks
>
>
>
> Candy
>