User guide

When a reaction map is established, you can point to an atom in one structure with the Reaction Atom-Atom Map tool
to highlight the mapped atom in the other structure.
Displaying and printing
To display reaction mapping symbols on screen and in print:
1. Go to File>Preferences.
2. In the Preferences dialog box, click the Building/Display tab.
3. Select Always Display and Print Reaction Mapping.
4. Click OK.
Deselect Always Display and Print Atom Mapping to show the symbols only when you select the Reaction Atom-
Atom Map tool. The symbols do not print.
Automatic mapping
To create a reaction map:
1. Select the reaction.
Tip: Double-click the arrow with a selection tool to select the reaction.
2. Go to Structure>Map Reaction Atoms.
The symbol Rxn appears next to the bonds in the reactant and product that are modified by the reaction. For more
information about the Reaction Center bond property, see "Bond properties" on page 208.
Figure 11.18: Automatic reaction mapping
Manual mapping
When manual atom-to-atom mapping is required, you can use the Reaction Atom-Atom Map tool. This might be nec-
essary when the automatic mapping is applied to complicated reactions, but gives incorrect results. In these cases
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