Normal Mode Wizard

Normal Mode Wizard (NMWiz) is a VMD plugin for depiction, animation, and comparative analysis of normal modes. Normal modes may come from principal component of structural ensembles, essential dynamics analysis of simulation trajectories, or normal mode analysis of protein structures. In addition, NMWiz can be used to depict any vector that describes a molecular motion.

Required Programs

The latest versions of ProDy (1.4 or later) and VMD (1.9.2 or later) are required.

Getting Started

To follow this tutorial, you will need the following files:

 12M  1dlo_anm_cross-correlations.txt
224K  1dlo_anm.nmd
661K  1dlo.pdb
3.3M  p38_100frames.dcd
219K  p38.pdb