VMD -- Visual Molecular Dynamics
Theoretical Biophysics Group
University of Illinois and Beckman Institute
405 N. Matthews
Urbana, IL 61801
MIME Type: File extension:
chemical/x-pdb pdb
chemical/x-xyz xyz
chemical/x-mdl-molfile mol
chemical/x-macromodel mmd
chemical/x-gaussian-input gau
Platforms: Unix (Silicon Graphics)
Features: (Excerpt from a program announcement on) VMD is designed
for the visualization of biological systems such as
proteins, nucleic acids, lipid bilayer assemblies, etc. It may be
used to view more general molecules, as VMD can read standard Protein
Data Bank (PDB) files and display the contained structure. VMD
provides a wide variety of methods for rendering and coloring a
molecule: simple points and lines, CPK spheres and cylinders, licorice
bonds, backbone tubes and ribbons, and others. VMD can be used to
animate and analyze the trajectory of a molecular dynamics (MD) simulation.
In particular, VMD can act as a graphical front end for an external MD
program by displaying and animating a molecule undergoing simulation
on a remote computer.
More Program information about the program's capabilities and use is available at VMD's home page. The User's Guide contains information on using VMD as a helper application. There is also a script called "chemical2vmd" (available at Web Reference:
VMD Home Page: http://www.ks.uiuc.edu/Research/vmd/
Online Manuals:
VMD Quick Help: http://www.ks.uiuc.edu/Research/vmd/vmd_help.html
User's Guide: http://www.ks.uiuc.edu/Research/vmd/ug/ug.html
Programmer's Guide: http://www.ks.uiuc.edu/Research/vmd/pg/pg.html
VMD FAQ: http://www.ks.uiuc.edu/Research/vmd/vmd_faq.html
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