There are keyboard shortcuts for a few specific Structure Window and Sequence Window commands in Cn3D. These shortcuts may not available on all platforms, but the equivalent menu items are always present. "Ctrl/Meta" means that on some platforms, the 'control' key is used (PC and UNIX), and on others the 'meta' key is used (Macintosh).
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Keyboard shorcuts in the Structure Window
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| Open | Ctrl/Meta + O |
| Network load | Ctrl/Meta + N |
| Save | Ctrl/Meta + S |
| Zoom in | Z |
| Zoom out | X |
| Show next frame | Right Arrow |
| Show previous frame | Left Arrow |
| Show first frame | Down Arrow |
| Show last frame | Up Arrow |
| Show all frames | A |
| Animate: play frames | P |
| Animate: spin | N |
| Stop animation | S |
| Show everything | E |
| Show aligned domains | D |
| Select molecule | M |
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Keyboard shorcuts in the Sequence Windows
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| Undo | Ctrl + Z |
| Redo | Shift + Ctrl + Z |
| Select rectangle | S |
| Select columns | C |
| Select blocks | B |
| Select rows | R |
| Horizontal drag | H |
The following tables tell how to interact with Cn3D using the mouse and keyboard together. There are two tables: one for the Structure Window, and one for the Sequence Window. "Left-drag" here means hold down the left button (or the only button, on a Macintosh) and drag the mouse. "Shift + drag" means hold down the 'shift' key while dragging the mouse.
| Rotate | Left-drag |
| Translate | Shift + left-drag |
| Zoom | Ctrl + left-drag |
| Select residue | Double-click |
| Set rotation center | Ctrl/Meta + double-click |
| Set selection | Left-drag |
| Extend selection | Shift + left-drag |
| Invert selection | Ctrl/Meta + left-drag |
| Browse Entrez | Left-click on title/identifier |