MolPane Widget

Basics

The MolPane Widget is for displaying structures and reactions. It has this icon in the form builder Design mode toolbar:

The MolPane Widget is based on the ChemAxon MViewPane component and you have full control over the display and manipulation of the structure through the right-click popup menu functions. This includes various options for 2D and 3D molecule display. See the Marvin User Guide for full details.

Settings

Permanent changes to the display settings can be made using the settings editor, as with any Widget. This inlcudes many of the Marvin display settings, but also lets you:

Specify whether the structure should be displayed in the original (default) or standardized form.
Hit alignment and orientation options.

As with all Widgets, multiple MolPanes can be used to display your strucutre. This can be useful if you want to see the structure in multiple forms (e.g 2D and 3D, or original and standardized). The image below shows the same 3D structure displayed in original, 2D and 2D standardized forms.

Editing structures

If you double click on the MolPane the Marvin Sketch editor opens letting you edit the structure. Once you have made you changes click on the OK button and your changes are applied.

One important aspect of editing structures is which form of the structure are you editing, as the display settings can display a different form or the structure compared to the original that is in the database. When editing the structure it is always the original database structure that you are editing (the one that was originally entered or imported). This may be in a different form to the one that is currently displayed as:

A 3D structure may be being displayed as 2D.
The standardized form of the structure may be the one displayed.

Query mode

In query mode you specify a query structure by double clicking on the panel to open the sketcher. Sketch your query and close the window and you will see the query structure set. You can also specify the search type and the advanced search options using the right click popup menu.