Jmol/Visualizing large molecules: Difference between revisions

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Eric Martz (talk | contribs)
ConfirmAccount, Editor, Print3D, Tester, Bureaucrats, journal, Administrators
30,118 edits
Eric Martz (talk | contribs)
ConfirmAccount, Editor, Print3D, Tester, Bureaucrats, journal, Administrators
30,118 edits
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Jmol can be instructed to load only the first model of a multiple-model PDB file. This is best done with the Jmol application (outside of Proteopedia). Later, the single model could be uploaded to Proteopedia for use in a scene.
Jmol can be instructed to load only the first model of a multiple-model PDB file. This is best done with the Jmol application (outside of Proteopedia). Later, the single model could be uploaded to Proteopedia for use in a scene.


*'''Put Jmol.jar in your working folder''': Create a folder (directory) on your computer in which to work. Go to [http://jmol.org Jmol.Org],  select Download (upper right), go to the Jmol Downloads Page, and download the current version as a binary.zip file. Unzip the file (this is automatic on Macs), and copy the file Jmol.jar (one of a large number of files in the zipped download). This is the Jmol application. Paste it into your working folder.
{{Template:Jmol application instructions}}
 
*'''Run the Jmol application''': Double-click Jmol.jar in your working folder, and a black window will appear titled "Jmol". If the white "Jmol Script Console" window does not appear, use Jmol's File menu (at the top), Console to open it.


*'''Demonstrate ''Out Of Memory''''': Type the following command into the white console window:
*'''Demonstrate ''Out Of Memory''''': Type the following command into the white console window:
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