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Gromacs Is this your site?    
A molecular dynamics package primarily designed for biomolecular systems such as proteins and lipids. It is a free software.
http://www.gromacs.org/

Home page - Dennis Rapaport Is this your site?    
Sections on molecular dynamics include java simulations, visualization and interactivity.
http://www.ph.biu.ac.il/~rapaport/

Molecular Dynamics Is this your site?    
Includes an extensive tutorial, with sample programs in Fortran 90, and links to software packages.
http://www.fisica.uniud.it/~ercolessi/md/

Molecular Dynamics Is this your site?    
Focuses on parallel molecular dynamics: algorithms, benchmark timings, codes and simulation results. Includes several article references.
http://www.cs.sandia.gov/~sjplimp/md.html

NAMD Scalable Molecular Dynamics Is this your site?    
NAMD is a parallel, object-oriented molecular dynamics code designed for high-performance simulation of large biomolecular systems.
http://www.ks.uiuc.edu/Research/namd/

NWChem High Performance Computational Chemistry Software Is this your site?    
NWChem is a computational chemistry software capable of molecular dynamics simulations. It is designed to run on parallel computers and it is developed by the Pacific Northwest Nat...
http://www.emsl.pnl.gov/docs/nwchem/nwchem.html

Seascape Learning! Is this your site?    
Seascape offers computational chemistry and biology software/services including molecular dynamics calculations.
http://www.seascapelearning.com

The Fritz Haber Center for Molecular Research Is this your site?    
The primary objectives of the center are to support research in molecular dynamics and encourage cooperation between German and Israeli scientists. The center supports theoretical ...
http://www.fh.huji.ac.il/

The MD Group Is this your site?    
The MD Group is concerned with molecular and mesoscopic dynamics simulation studies of complex biomolecular systems such as biopolymers and lipid aggregates.
http://md.chem.rug.nl/

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