PyMOL is designed to be driven using a three button “wheel” mouse. However, an alternate two-button mode is supported. To active it, select “2 Button Viewing Cycle” or the “2 Button Editing Cycle” from the Mouse menu.
With “2 Button Viewing Cycle”, when the user clicks on the Mouse Mode indicator in the Viewer window, the mouse configuration will toggle back and forth between “2 Button Viewing” and “2 Button Selecting”.
With “2 Button Editing Cycle”, when the user clicks on the Mouse Mode indicator in the Viewer window, the mouse configuration will cycle through “2 Button Viewing”, “2 Button Selecting”, and “2 Button Editing”.
It is also possible to select each of these modes directly from the Mouse menu.
| Action | Left Button Action | Right Button Action | |
| click | pick atom | activate context-sensitive menu | |
| double-click | activate context-sensitive menu | center camera on atom | |
| click-and-drag | rotate camera | zoom (move camera along Z) | |
| SHIFT-click | set pick atom 1 (pk1) | ||
| SHIFT-click-and-drag | adjust clipping planes | ||
| CTRL-click-and-drag | move camera in XY Plane | ||
| CTRL-click | pick atom | ||
| CTRL-SHIFT-click | select | center camera on atom | |
| Action | Left Button Action | Right Button Action | |
| click | toggle selection | activate context-sensitive menu | |
| double-click | activate context-sensitive menu | center camera on atom | |
| click-and-drag | rotate camera | zoom (move camera along Z) | |
| SHIFT-click | drag to add selection | drag to subtract selection | |
| CTRL-click | toggle selection | pick atom | |
| CTRL-SHIFT-click | select | center camera on atom | |
Unsupported.