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.
| | Dynamics | Docking | | Program | Developer Site | Program | Developer site |
| | Amber | http://ambermd.org/ | AutoDock | http://autodock.scripps.edu/ | | AMMP | http://www.cs.gsu.edu/~cscrwh/progs/progs.html | FlexX | http://www.biosolveit.de/FlexX/ | | BALLview | http://www.ballview.org/ | FRED | http://www.eyesopen.com/ | | CHARMM | http://www.charmm.org/ | GLIDE | http://www.schrodinger.com/ | | GROMACS | http://www.gromacs.org/ | GOLD | http://www.ccdc.cam.ac.uk/ | | LOOS Library | http://membrane.urmc.rochester.edu/Software | Sculptor | http://sculptor.biomachina.org/ | | YASARA | http://www.yasara.org/ | SLIDE | http://www.bch.msu.edu/ | | YUP | http://rumour.biology.gatech.edu/YammpWeb/ | SURFLEX | http://www.tripos.com/ | | ZMM | http://www.zmmsoft.com/ | UCSF DOCK | http://dock.compbio.ucsf.edu/ |
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