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 Feb 29  2024 1dlo_anm_cross-correlations.txt
224K Feb 29  2024 1dlo_anm.nmd
661K Feb 29  2024 1dlo.pdb
3.3M Feb 29  2024 p38_100frames.dcd
219K Feb 29  2024 p38.pdb