Molecular modeling and visualization software: Difference between revisions
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*[[Jmol]], an open-source java-based program available in stand-alone or applet forms. The applet is used in Proteopedia, and in the free educational software [[Molecular Workbench]]. Effective use of Jmol requires learning a command scripting language. | *[[Jmol]], an open-source java-based program available in stand-alone or applet forms. The applet is used in Proteopedia, and in the free educational software [[Molecular Workbench]]. Effective use of Jmol requires learning a command scripting language. | ||
*[[FirstGlance in Jmol]], an open-source user-interface to [[Jmol]] utilized in the ''3D View'' links in papers in the journal [http://www.nature.com/nature Nature] that report new macromolecular structures. Proteopedia's automatically seeded pages (pages titled with a [[PDB code]]) have links for further exploration of the structure in'' FirstGlance in Jmol''. Although ''FirstGlance in Jmol'' by no means exploits all the power in Jmol, it does show the main structural features of a macromolecule '''without learning any command scripting language'''. [[FirstGlance in Jmol|More ...]] | *[[FirstGlance in Jmol]], an open-source user-interface to [[Jmol]] utilized in the ''3D View'' links in papers in the journal [http://www.nature.com/nature Nature] that report new macromolecular structures. Proteopedia's automatically seeded pages (pages titled with a [[PDB code]]) have links for further exploration of the structure in'' FirstGlance in Jmol''. Although ''FirstGlance in Jmol'' by no means exploits all the power in Jmol, it does show the main structural features of a macromolecule '''without learning any command scripting language'''. [[FirstGlance in Jmol|More ...]] | ||
*[[Chimera]] (free for non-commercial use only). | |||
*[[Kinemages, Mage and KiNG]] (KiNG = Kinemage, Next Generation) are designed to present the author's viewpoint of a molecular structure. They excel in specialized areas, but are not optimal for general purpose visualization. KiNG can be used in Proteopedia; an example may be seen at [[Hemoglobin#Hemoglobin_subunit_binding_O2]]. | *[[Kinemages, Mage and KiNG]] (KiNG = Kinemage, Next Generation) are designed to present the author's viewpoint of a molecular structure. They excel in specialized areas, but are not optimal for general purpose visualization. KiNG can be used in Proteopedia; an example may be seen at [[Hemoglobin#Hemoglobin_subunit_binding_O2]]. | ||
*[[RasMol]], an open-source stand-alone program released in 1993, and still popular. Effective use of RasMol requires learning a command scripting language. | *[[RasMol]], an open-source stand-alone program released in 1993, and still popular. Effective use of RasMol requires learning a command scripting language. | ||
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* [http://istar.cse.cuhk.edu.hk/iview/ iView] - an interactive WebGL visualizer of protein-ligand complexes | * [http://istar.cse.cuhk.edu.hk/iview/ iView] - an interactive WebGL visualizer of protein-ligand complexes | ||
* [https://biasmv.github.io/pv/ PV - JavaScript Protein Viewer] | * [https://biasmv.github.io/pv/ PV - JavaScript Protein Viewer] | ||
==Free molecular modeling software== | ==Free molecular modeling software== | ||
