UCSF Chimera!

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> It's a good idea to run a personal firewall on your PC. Sygate provides free downloads of the Sygate Personal Firewall http://smb.sygate.com
that works well. If you run this firewall, the Sheild's UP test above will show all green (ports are in stealth status. > Most of the applications that you may want to download via the Internet are compressed archives. After downloading, you'll need to uncompress and expand these archives using the WinZip Self-Extractor application. You can either download a fully fuctional evaluation copy of WinZip Self-Extractor from here , or for $49 you can purchase your own copy from here https://secure.safesite.com/cgi-bin/wzb1.
Either way, this program is a must have. > Vim is an almost compatible version of the UNIX vi text editor. Many new feature

UCSF Chimera alternatives

  • Rasmol

  • RasMol is a computer program written for molecular graphics visualization intended and used primarily for the depiction and exploration of biological macromolecule structures, such as those found in the Protein Data Bank. It was originally developed by Roger Sayle in the early 90s.Historically, it was an important tool for molecular biologists since the extremely optimized program allowed the software to run on (then) modestly powerful personal computers. Before RasMol, visualization software ran on graphics workstations that, due to their expense, were less accessible to scholars. RasMol has become an important educational tool as well as continuing to be an important tool for research in structural biology.RasMol has a complex version history. Starting with the series of 2.7 versions, RasMol is licensed under a dual license (GPL or custom license RASLIC).RasMol includes a language (for selecting certain protein chains, or changing colors etc.). Jmol and Sirius has incorporated the RasMol scripting language into its commands.Protein Databank (PDB) files can be downloaded for visualization from members of the Worldwide Protein Data Bank (wwPDB). These have been uploaded by researchers who have characterized the structure of molecules usually by X-ray crystallography, NMR spectroscopy or electron microscopy. »

    tags: visualization chemistry proteins computational-chemistry

  • Jmol

  • Jmol is a free, open source molecule viewer for students, educators, and researchers in chemistry and biochemistry. It is cross-platform, running on Windows, Mac OS X, and Linux/Unix systems.

    tags: visualization chemistry molecular-dynamics proteins

  • pymol

  • PyMOL is a powerful and comprehensive molecular visualization product for rendering and animating 3D molecular structures.

    tags: chemistry modeling proteins python sciences

  • RasTop

  • RasTop is a molecular visualization software adapted from the program RasMol, which was initially developed by Roger Sayle. RasTop is particularly adapted for educational purposes and for the rapid analysis of macromolecules at the bench. RasTop wraps a user-friendly graphical interface around the "RasMol molecular engine". There is no need to type on the command line; each command in the menu generates its own script. Through an extended menu and a command panel, users can manipulate numerous molecules rapidly and learn about them. Work sessions are saved in script format and are fully regenerated with a simple mouse click. »

    tags: visualization rendering dna structure protein