PPAR Research / 2010 / Article / Tab 2

Review Article

Virtual Screening as a Technique for PPAR Modulator Discovery

Table 2

List of some commonly used molecular dynamics and docking software packages with developer URL. This is not intended to be a comprehensive list of all available dynamics and docking programs available. Available programs are typically free to download for academic use, but some require the purchase of a license for use.

DynamicsDocking
ProgramDeveloper SiteProgramDeveloper site

Amberhttp://ambermd.org/AutoDockhttp://autodock.scripps.edu/
AMMPhttp://www.cs.gsu.edu/~cscrwh/progs/progs.htmlFlexXhttp://www.biosolveit.de/FlexX/
BALLviewhttp://www.ballview.org/FREDhttp://www.eyesopen.com/
CHARMMhttp://www.charmm.org/GLIDEhttp://www.schrodinger.com/
GROMACShttp://www.gromacs.org/GOLDhttp://www.ccdc.cam.ac.uk/
LOOS Libraryhttp://membrane.urmc.rochester.edu/SoftwareSculptorhttp://sculptor.biomachina.org/
YASARAhttp://www.yasara.org/SLIDEhttp://www.bch.msu.edu/
YUPhttp://rumour.biology.gatech.edu/YammpWeb/SURFLEXhttp://www.tripos.com/
ZMMhttp://www.zmmsoft.com/UCSF DOCKhttp://dock.compbio.ucsf.edu/