Jmol


Jmol

Infobox Software
name = Jmol



caption = Jmol is a Java molecular viewer for three-dimensional chemical structures.
developer = Jmol development team
released = ?
frequently_updated = yes
programming language = Java
operating system = Cross-platform
language = Catalan, Czech, Dutch, English, Estonian, French, German, Portuguese, Spanish, Turkish
genre = Molecular modelling
license = LGPL
website = [http://www.jmol.org/ www.jmol.org] and [http://wiki.jmol.org/ wiki.jmol.org]

Jmol is a molecule viewer for use in chemistry and biochemistry. It is free and open source. It can be used as a teaching tool or in research. It is Java based and 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", 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, 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 Mozilla Firefox 2 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. Jmol is fully functional in Mozilla Firefox on Microsoft Windows and Linux, and in Safari on Mac OS X.

Version 11.4 of Jmol was released in January 2008.__notoc__

creenshots

ee also

* CDK
* Molecular graphics

External links

* [http://www.jmol.org/ Jmol web site]
* [http://wiki.jmol.org/ Jmol Wiki]
* [http://firstglance.jmol.org FirstGlance in Jmol] , an easy web-based user-interface for seeing the major structural features of any macromolecule in Jmol.
* [http://wiki.jmol.org/index.php/Websites_Using_Jmol Websites using Jmol]
* [http://wiki.jmol.org/index.php/Wikis_Using_Jmol Wikis using Jmol]
* [http://wiki.jmol.org/index.php/Moodles_Using_Jmol Moodles using Jmol]
* [http://molviz.org MolviZ.Org] : Jmol-based tutorials on DNA Structure, Hemoglobin, Lipid Bilayers and Channels, and more.
* [http://webpages.dcu.ie/~pratta/ Dublin City University CHIME and Jmol Pages]
* [http://www.ch.ic.ac.uk/local/organic/pericyclic/ A lecture course on pericyclic reactions using Jmol]
* [http://www.ch.ic.ac.uk/local/symmetry/ Molecular symmetry illustrated using Jmol]
* [http://www.ch.ic.ac.uk/rzepa/bpr/ Berry and other modes of pseudorotation illustrated using Jmol]
* [http://www.ch.ic.ac.uk/local/organic/mod/ Molecular modelling case studies illustrated using Jmol]

Notes


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