Software Available For Download and Web Servers

 

1. Gaussian Network Model (GNM) program for calculating magnitudes of motion - mean-square amplitudes, in total and for individual modes of motion.
• GNM.f is Fortran program.
• GNM.pdf is colored program in PDF format to aid in understanding.
• 1aqb.pdb is the protein input file for GNM in PDB format and can also be downloaded from Brookhaven Protein Data Bank ( http://www.rcsb.org/pdb/)
2. Anisotropic Network Model (ANM) program for calculating directions of motion, for all motions and for individual modes of motion.
• ANM3.f is Fortran program
• ANM3.pdf is colored program in PDF format to aid in understanding.
• 1hrc.pdb is the protein input file for ANM in PDB format and can also be downloaded from Brookhaven Protein Data Bank ( http://www.rcsb.org/pdb/ ).
3. A program to create movies of normal modes from ANM outputs using VMD freeware software ( http://www.ks.uiuc.edu/Research/vmd/ ).
• movie.f is the program.
• movie.pdf is colorized version in PDF format to aid in understanding
4. Web Servers
• Potential Function Server
• Secondary Structure Prediction Server
• GNM Server
• ANM Server