VMD-L Mailing List

From: Gregorio Alanislobato (gregorio.alanislobato_at_kaust.edu.sa)
Date: Tue Aug 17 2010 - 16:14:46 CDT

Thanks everyone! The problem is solved!!!

Regards, 

-- 
Gregorio Alanís Lobato, BSc
4700 KAUST Mail Box: 1899
Thuwal 23955–6900, KSA
Student ID: 100037943
Badge #: 101969
Mobile Phone: +966-564-75-14-14
e-mail: gregorio.alanislobato_at_kaust.edu.sa
On 16 August 2010 23:21, Axel Kohlmeyer <akohlmey_at_gmail.com> wrote:
> On Mon, Aug 16, 2010 at 9:29 PM, Gregorio Alanislobato
> <gregorio.alanislobato_at_kaust.edu.sa> wrote:
> > Hi everyone,
> >
> > I've got two coarse grained proteins with 130 atoms each and no matter
> what
> > selection I type in the RMSD calculator, I obtain the message "Selection
> > contains no atoms. RMSD calculation not possible". What can be wrong?
>
> your  input. please read the documentation about atom selections
> in the VMD user's guide again. keep in mind that most of the
> heuristics that the selection language users, require pdb style
> naming conventions, which are usually not given for any
> coarse grain model. VMD doesn't know what your input
> really stands for. it is only a computer program.
>
> axel.
>
> >
> > Thanks again.
> >
> > Regards,
> > --
> > Gregorio Alanís Lobato, BSc
> > 4700 KAUST Mail Box: 1899
> > Thuwal 23955–6900, KSA
> > Student ID: 100037943
> > Badge #: 101969
> > Mobile Phone: +966-564-75-14-14
> > e-mail: gregorio.alanislobato_at_kaust.edu.sa
> >
> >
> >
> > On 16 August 2010 14:58, Mert Gür <gurmert_at_gmail.com> wrote:
> >>
> >> Dear Gregorio,
> >> Type "name CA" instead of "protein" in the RMSD plugin
> >> Best,
> >> Mert
> >>
> >> On Mon, Aug 16, 2010 at 8:13 PM, Gregorio Alanislobato
> >> <gregorio.alanislobato_at_kaust.edu.sa> wrote:
> >> > Hi,
> >> >
> >> > I would like to measure the RSMD between two coarse grained molecules
> >> > but
> >> > VMD keeps saying it is not possible. Do anyone know of a way to do
> this?
> >> >
> >> > Thanks in advance.
> >> >
> >> > Regards,
> >> > --
> >> > Gregorio Alanís Lobato, BSc
> >> > 4700 KAUST Mail Box: 1899
> >> > Thuwal 23955–6900, KSA
> >> > Student ID: 100037943
> >> > Badge #: 101969
> >> > Mobile Phone: +966-564-75-14-14
> >> > e-mail: gregorio.alanislobato_at_kaust.edu.sa
> >> >
> >
> >
> >
> >
>
>
>
> --
> Dr. Axel Kohlmeyer    akohlmey_at_gmail.com
> http://sites.google.com/site/akohlmey/
>
> Institute for Computational Molecular Science
> Temple University, Philadelphia PA, USA.
>