[gmx-users] Visualizing Trajectories

Christian Kandt kandt at bph.ruhr-uni-bochum.de
Mon Oct 29 14:12:18 CET 2001

Hi there!

Just having joined the mailing list I'd like to start with another idea
of visualizing trajectories without using ngmx:

 MolMol is a quite powerful and versatile molecular visualization tool
with the ability to load multiconformational pdb-files.
So here is what's to do:

1.) Convert your trajectory into a nmr-pdb of suitable size
2.) Load this file into MolMol
3.) Select all Molecules by >SelectMol ''<  (Those '' are two single '
4.) Start playing trajectory by >StartAnim<
5.) There you are!
6.) If you like a different look try for example the RIBBON buttom

Display Quality can be changed via the >DrawPrec N< command. N can be
any number between 1 and whatever your hardware can handle.

MolMol is available for free at:

Christian Kandt

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