Re: error regarding membrane embedded protein

From: Axel Kohlmeyer (akohlmey_at_gmail.com)
Date: Wed Nov 28 2012 - 02:23:21 CST

On Wed, Nov 28, 2012 at 8:58 AM, Maria Saeed <mariyasaeed_at_yahoo.com> wrote:
>
> Hi,
>
> All ,
>
> I have an error regarding membrane embedded protein simulation by using vmd
> when i am combination of membrane and protein merge pdb and psf file showing
> some errors and coordinates are missing

some? there is nothing here.

> SF
>
> 3 !NTITLE
> REMARKS original generated structure x-plor psf file
> REMARKS topology
> /usr/local/vmd/plugins/noarch/tcl/readcharmmtop1.1/top_all27_prot_lipid_na.inp
> REMARKS topology top_all27_prot_lipid.inp
>
> 0 !NATOM
>
> 0 !NBOND: bonds
>
>
> 0 !NTHETA: angles
>
>
> 0 !NPHI: dihedrals
>
>
> 0 !NIMPHI: impropers
>
>
> 0 !NDON: donors
>
>
> 0 !NACC: acceptors
>
>
> 0 !NNB
>
>
>
> 1 0 !NGRP
> 0 0 0
>
> while pdb just showing membrane pope coordinates due to this error i can't
> further more steps
>
> If anybody know plz guide me.

no way. you must have messed up something,
but there is nothing here to tell what went wrong.

axel.

>
>
>
> - -
> Regards,
>
> Maria Saeed,
>
>
>

--
Dr. Axel Kohlmeyer  akohlmey_at_gmail.com  http://goo.gl/1wk0
International Centre for Theoretical Physics, Trieste. Italy.

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