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This window helps navigate through the list of bonds and
manage their properties. All operations, which can be performed in this window work with selections. Standard shortcuts for list windows work in this window: Ctrl+A - select all bonds Ctrl+S - show selected bonds Ctrl+H - hide selected bonds Del - deletes selected bonds; note that the bonds are not removed from the structure while it is not saved and the option to delete them permanently is chosen. |
| View of the 'Bonds' window. | |
Toolbar commands:
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Shows ungrouped list |
| Shows list by bonds length | |
| Shows the list by atom label | |
| Shows the list by atom type | |
| Shows 'Atoms' window with atoms of selected bonds | |
| Shows 'Bonds Properties' dialog for selected bonds | |
| Hides selected bonds | |
| Shows selected bonds |
Some additional commands accessible through the context menu:
| Copy bonds for Restrains | Copies formatting for restrains list of selected bonds to the clipboard. Useful for multiple restrains over similar bonds. |
| Copy Bonds Table | Copies the bonds list to the clipboard. The format depends on current grouping. |
| Convert to Covalent | Special function, which works with short intermolecular interactions. Converts a list of selected short interaction to covalent bonds. The command forces the application to reconnect fragments. The operation can be performed only once. |
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Topological Analysis related commands |
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| Collide to One Node | Replaces two nodes in network with the one at the centre of
gravity. Note, that this window is not updated automatically. This function is useful then clusters are needed to be considered as nodes. |
| Extract form Net | Extracts selected bonds from the topological network |