VMD-L Mailing List

From: Axel Kohlmeyer (akohlmey_at_gmail.com)
Date: Tue Apr 22 2014 - 10:53:19 CDT

On Tue, Apr 22, 2014 at 11:08 AM, Jeremías Corradi
<jcorradi_at_criba.edu.ar> wrote:
> sorry Axel to bother, i don't want a "personal trainer", the only thing i'm
> looking for is just some guide how to show the h-bonds, or other
> interactions, because the guide i found on the web and other messages in the
> list were not clear enough for me...

sorry, but you are out of luck then. if the existing documentation and
tutorials are not sufficient then you *do* require personal training.
or somebody writing a tutorial that is suitable for you. but since you
only declare them "not clear enough" and don't provide any examples of
what exactly you are looking for to get as a "nice" picture, how
should somebody know what you don't understand and what a tutorial
that is "clear enough" has to look like?

> after doing that i will use VMD to get the "nice picture" i want combined
> with other programs... like PovRay...

huh?

>
>
> Jere
>
>
> -----Mensaje original----- From: Axel Kohlmeyer
> Sent: Tuesday, April 22, 2014 11:50 AM
> To: Jeremías Corradi
> Cc: Vmd l
> Subject: Re: vmd-l: ligand-protein bonds representation
>
>
> On Tue, Apr 22, 2014 at 9:36 AM, Jeremías Corradi <jcorradi_at_criba.edu.ar>
> wrote:
>>
>> Hi, i want to make a nice figure from a docking result and i need help
>> with
>> H-bond, pi-pi and cation-pi representations in VMD, are they possible? can
>> somebody give me a step-by-step tutorial how to do this???
>
>
> are you saying you want a personal trainer?
> don't think you'll find one unless you offer some compensation worth
> the effort. remember that you want to be taught how to do some custom
> visualization that probably not a lot of people have done and thus
> whoever would help you will first have to figure out how to do exactly
> what you want.
>
> on the other hand, you can just go through the existing visualization
> tutorials and teach yourself how VMD works and particularly how you
> can add custom graphics elements to a representation and then not only
> have your immediate problem solved, but acquired a useful skill for
> the future.
>
> please also note that many *very* nice images are composites that take
> an image rendered with a molecular visualization tool and then augment
> it with a tool like gimp or photoshop.
>
> finally, very nice pictures don't come automatically. they are usually
> the result of some experimentation, experience and inspiration...
>
> axel.
>
>> thank you very much in advance
>> Jeremías
>>
>> Dr. Bioq. Jeremías Corradi
>> INIBIBB-CONICET
>> Bahía Blanca - Argentina
>
>
>
>
> --
> Dr. Axel Kohlmeyer akohlmey_at_gmail.com http://goo.gl/1wk0
> College of Science & Technology, Temple University, Philadelphia PA, USA
> International Centre for Theoretical Physics, Trieste. Italy. 

-- 
Dr. Axel Kohlmeyer  akohlmey_at_gmail.com  http://goo.gl/1wk0
College of Science & Technology, Temple University, Philadelphia PA, USA
International Centre for Theoretical Physics, Trieste. Italy.