Help:Copying FirstGlance Scenes into Proteopedia

1. Be sure to start FirstGlance in Jmol from the link beneath the molecule in Proteopedia. This link goes to a version of FirstGlance in Jmol that uses a Jmol version matched to the version of Jmol in Proteopedia. If you go to firstglance.jmol.org, you will get an older version that will not work for copying scenes in to Proteopedia.

2. Obtain the desired scene in FirstGlance in Jmol. Turn off spinning, and orient and zoom the molecule as you want it to appear (even if you want it to spin in Proteopedia).

3. Open Jmol's Console: Click on the word Jmol at the lower right corner below the molecule. On the menu that opens, click Console. A new small white window will appear. It is the Jmol Console.

4. Display the state script: Click the console buttons Clear Output, then State. A long Jmol command script will appear in the top box of the Console. This script describes the current state or scene in Jmol.

5. Copy the state script: Click in the top box of the Console, then Ctrl-A (Windows) or Cmd-A (Apple) to select the long script. Ctrl-C (Windows) or Cmd-C (Apple) to copy the script to the clipboard.

6. Edit the page in Proteopedia where you want to install the scene from FirstGlance in Jmol. Show the Scene Authoring Tool.

7. Load your molecule or a previous scene:

• If you already have a scene (green link) on the page, and you want to modify the scene, use the load scene tab. Or,
• Use the load molecule tab to load your PDB code into the Jmol in the Scene Authoring Tool.

8. Open the selections tab and click the select all button.

9. Open the representations tab and click the hide selection button. This hides the molecule -- there will be nothing in Jmol.

10. Click Jmol at the lower right of Jmol, to open Jmol's menu. Click Console to open the console.

(To be continued ...)