Jmol
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For Renewed judgment as a matter of law (JMOL), see Renewed JMOL.
Jmol is a Java molecular viewer for three-dimensional chemical structures. | |
| Developer(s) | Jmol development team |
| Stable release | 11.8.17 (January 16, 2010) [+/−] |
| Preview release | 11.9.19 (January 16, 2010) [+/−] |
| Written in | Java |
| Operating system | Cross-platform |
| Available in | Catalan, Chinese, Czech, Dutch, English, French, German, Hungarian, Italian, Korean, Portuguese, Spanish, Turkish |
| Type | Molecular modelling |
| License | LGPL |
| Website | www.jmol.org and wiki.jmol.org |
Jmol is an open-source Java viewer for chemical structures in 3D. Jmol returns a 3D representation of a molecule that may be used as a teaching tool,[1] or for research e.g. in chemistry and biochemistry. It is free and open source software, written in Java and so it runs on Windows, Mac OS X, Linux and Unix systems. There is a standalone application and a development tool kit that can be integrated into other Java applications. The most notable feature is an applet that can be integrated into web pages to display molecules in a variety of ways. For example, molecules can be displayed as "ball and stick" models, "space filling" models, "ribbon" models, etc. Jmol supports a wide range of molecular file formats, including Protein Data Bank (pdb), Crystallographic Information File (cif), MDL Molfile (mol), and Chemical Markup Language (CML).
The Jmol applet, among other capabilities, offers an alternative to the Chime plugin,[1] which is no longer under active development. While Jmol has many features that are not available in Chime, it does not claim to reproduce all Chime functionality (most notably, Chime's Sculpt mode). Chime requires plug-in installation and Internet Explorer 6.0 or Firefox 2.0 on Microsoft Windows, or OS 9/Netscape Communicator 4.8 on the Macintosh. Jmol requires Java installation and operates on a wide variety of platforms. For example, Jmol is fully functional in Mozilla Firefox, Internet Explorer, Opera and Google Chrome on Microsoft Windows, in Mozilla Firefox on Linux, and in Safari on Mac OS X.
Screenshots
Jmol screenshot 2hvy.jpg Crystal structure of an H/ACA box RNP from Pyrococcus furiosus | Jmol screenshot hemoglobin.png Highlighting two salt bridges in hemoglobin tetramer (hemo group as sticks at bottom-right). | Jmol screenshot zincfinger.png A fragment of transcription factor TFIIIA forming three consecutive zinc finger motifs, bound to a stretch of DNA. | Jmol screenshot thermus ribosome 1jgo and 1giy.jpg Eubacterial 70S Ribosome from Thermus thermophilus. |
See also
References
- ^ a b Herraez, A (2006), "Biomolecules in the Computer: Jmol to the Rescue", Biochemistry and Molecular Biology Education 34 (4): 7, doi:, http://eric.ed.gov/ERICWebPortal/recordDetail?accno=EJ759053
External links
- Jmol official web site
- Jmol wiki where a list of Websites, Wikis, Moodles, ... using Jmol is available
Notes
| This biochemistry article is a stub. You can help Wikipedia by expanding it. |
| This computer software article is a stub. You can help Wikipedia by expanding it. |
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