MSL
http://dx.doi.org/10.1002/jcc.22968
...Philosophy
The main goal is to create a set of tools that enable the computational study of macromolecules with relative ease at all levels, from simple operations (for example, load a PDB and measure a distance or edit a dihedral) to complex applications (protein modeling or design).
MSL is developed in the Senes Lab at the University of Wisconsin-Madison and by a team of developers/users from other research laboratories.
Reference:
Kulp DW, Subramaniam S, Donald JE, Hannigan BT, Mueller BK, Grigoryan G, Senes A.
Structural informatics, modeling, and design with an open-source Molecular Software Library (MSL).
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