[Molvis-list] how to get more shades in rasmol?

Trans-Laboratory -- Chemical Analysis Service Provider -- trans.lab at skynet.be
Thu Dec 2 12:05:41 EST 2004

...very glad you found the answer to your immediate concerns.  Just wanted
to tell you that in the long run RasMol has proved -and shall do- to be
extremely powerful and well developed, thus to consign it to as your call it
"electronic dirtheap" is in my view -to say the least- rushing things.  I do
warn you that I am not an expert in any of the softwares let alone
modelling, just from my amateurish point of view!  


Ricardo A. Correa C.
Molecular Biology Amateur
-----Original Message-----
From: molvis-list-bounces at bioinformatics.org
[mailto:molvis-list-bounces at bioinformatics.org] On Behalf Of Kristina Rogale
Sent: 01 December 2004 20:52
To: Molecular Visualization, especially in education with freeware
Subject: Re: [Molvis-list] how to get more shades in rasmol? 

> >Warning: Unable to allocate shade!
> Jmol (jmol.sourceforge.net) does not have this bug, and accepts the 
> RasMol/Chime command set.

Thank you very much! Indeed Jmol works better - I'm a convert! I was
wondering though, before I consign rasmol to the electronic dirtheap,
whether all the rasmol commands are implemented in Jmol (please pardon my
ignorance). For example, 'color chains'
did not seem to be a recognized command in Jmol, which is sometimes very
useful command. 

Thanks very much also for consurf link! Indeed, I wasn't aware of it. 
Also, the script that you can download from their site doesn't seem to work
in Jmol (but it does in rasmol). 

> Are you aware that you can color by conservation (in Chime, in Protein
> Explorer) automatically at consurf.tau.ac.il? This display uses 9 
> colors, and generally doesn't run out of colors on Windows systems. 
> The coloring script can be downloaded, e.g. for use in RasMol or Chime or
PE or Jmol.

I'm not sure this is the right list on which to bring these further
questions up, in which case I apologize for junking people's mailboxes. I
just wanted to thank you again for pointing me in the right direction!

Thank you again!

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