JMV Quick Help For the latest in JMV news and developments, please see the JMV homepage.

For more information on installation of Java and Java3D, please see the JMV Installation Guide.
For more information on using JMV, and its functions and capabilities, please see the JMV User's Guide.
For more information on developing for JMV, and customizing it for your own purposes, please see the JMV Programmers's Guide.

JMV Quick Start

JMV controls:

Left button: Rotate
Middle button: Zoom (Up->Zoom Out; Down->Zoom In)
Note: On 2-button mice, Zoom is accomplished by holding the Alt key and using the Left button.
Right button: Translate

How do I change the molecule's representation?

From the "View" menu, select "Representation" and choose the representation from the choices displayed.

How do I change the way the molecule is colored?

To change how the molecule is colored (by atom index, by atom name, etc.), from the "View" menu, select "Color by", and choose a colorization scheme.

How do I change the color gradient?

From the "View" menu, select "Color gradient", and choose a gradient. "RGB" means Red->Green->Blue, etc. If you select "Custom", a popup box with 3 buttons will be shown. Clicking in these buttons lets you set the start, middle, and end colors for the custom gradient.

How do I set the background color?

From "View", select "Display options". In the pop-up window that is displayed, click on the "Change background color" button. This will pop up another window allowing you to select a color for the background.

Additional Resources

Theoretical Biophysics Group main page:
JMV Javadocs:
Java 1.4:
Java3D (Windows and Sun):
Java3D for Linux:

Online Documentation