VMD/NAMD | Excellent open source molecular visualization/molecular dynamics software |
MMTK | The Molecular Modelling Toolkit: an open source library for molecular simulation applications |
PyMOL | An open source Python-enhanced molecular graphics program |
The Protein Data Bank | The principal public repository for structural models of biological macromolecules |
Archived NanoCAD mailing list | An archived mailing list from 1995 to 2001 that contains interesting discussions about the development of molecular modeling software, though mainly focused around nanotechnology |
Archived MMTK mailing list | An archived mailing list from 1997 to 2004 for the Molecular Modeling Toolkit |
Archived VMD mailing list | An archived mailing list from 1997 to 2004 for the Visual Molecular Dynamics program |
Archived NAMD mailing list | An archived mailing list from 2003 to 2004 for the NAMD Molecular Dynamics program |