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Home / Science / Chemistry / Molecular Modeling / Visualization
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Web Sites
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- Biodesigner - A molecular viewer for win9x systems with sequence editor and protein builder. Free for academic use.
www.pirx.com/biodesigner/index.shtml
- Dino - A free 3D visualization program for structural biology data with emphasis on analyzing surface or electron density properties. Output can be written as PNG, PostScript or POV-Ray. Runs on IRIX, Linux, OSF1 and SunOS.
www.bioz.unibas.ch/~xray/dino
- DTMM - Desktop Molecular Modeller: A simple program for constructing and viewing small molecules and proteins in 3D with some energy calculation/minimization capabilities. Run on any PC with Windows 9X/NT. Commercial software.
www.polyhedron.co.uk/dtmm/dtmm.html
- gOpenMol - A free program for the analysis of molecular dynamics trajectories and the display of molecular orbitals, electron densities and electrostatic potentials. Supports many file formats like the GaussianXX, Jaguar, CHARMM, AMBER etc.
www.csc.fi/~laaksone/gopenmol/gopenmol.html
- Grasp - A visualization and analysis program useful for the display and manipulation of the surfaces of molecules and their electrostatic properties. Commercial software.
honiglab.cpmc.columbia.edu/grasp
- Historical Molecular Graphics - Digitized versions of 16mm movies of molecular structures produced in the early days of interactive molecular graphics.
www.umass.edu/molvis/francoeur/movgallery/moviegallery.html
- Labquip - Plastic molecular models for constructing polypeptides and DNA molecules.
www.labquip.clara.net/index.html
- Marvin - Java applets for the web developer who builds chemical internet/intranet sites. The package contains an applet for editing and visualizing molecules on a web page and one for viewing molecules on a web page.
www.chemaxon.com/marvin
- Molcular Model Kits - Plastic molecular structure models for research and education in science, intended especially for biochemistry.
www.sphere.ad.jp/hgs
- Molda - A molecular model building program for displaying data from MM2, MOPAC, Gaussian94, charmm and amber4 outputs. Supported on most windows, mac and unix platforms.
molda.chem.sci.hiroshima-u.ac.jp/molda-e/welcome.htm
- MOLMOL - A free program for displaying, analyzing, and manipulating the three-dimensional structure of biological macromolecules, with emphasis on structures determined by NMR. Runs on UNIX and Windows NT/95. The site offers an online tutorial.
www.mol.biol.ethz.ch/wuthrich/software/molmol
- Molymod Molecular Models - Plastic molecular models for use in chemistry, biochemistry, molecular biology (DNA double helix), semiconductors and crystal lattice structures.
www.molecular-model.com
- OpenRasMol - Provided for the convenience of users and software developers of open source versions of RasMol.
www.openrasmol.org
- OpenScience - A directory of links to free molecule viewers and editors.
www.openscience.org/links.php?section=56
- Protein Explorer - A web-based viewer for the 3D structures of proteins, DNA and RNA. Requires Netscape and the Chime plugin, which is only available for Windows9x.
www.umass.edu/microbio/chime/explorer
- Swiss-PdbViewer - A free program for viewing and analyzing several proteins at the same time. Some energy minimzation and homology modeling features are also included.
www.expasy.ch/spdbv/mainpage.html
- VMD - A free program for visualization and analysis of biological systems such as proteins, nucleic acids, and lipid bilayer assemblies.
www.ks.uiuc.edu/Research/vmd
- WebLab Viewer - A Windows9X/NT program to visualize and analyze small molecules and proteins. Also available as an ActiveX Control.
www.accelrys.com/viewer
- Ymol - A free molecular visualization and animation program for the X window system. Creates images and movies, using either the built in renderer or povray. Still alpha.
www.teoroo.mkem.uu.se/daniels/ymol.html
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