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*   Customizing the Structure Layout
You can change the way structures and other objects are displayed in the Structure Editor drawing area. The various layout items help tailor the graphics to your individual report or publication needs.
The structure layout settings apply to all structures in the application. Changing a structure layout item affects all structures in the Structure Editor, Database Manager, Fragments and Mechanisms, and Fragments Comparator modules.
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To open the Structure Layout dialog box
1.
Choose Options > Settings from the Mass Frontier main menu.
The Options dialog box opens.
2.
Click Structure in the Layouts section.
The Atom & Bond page of the Structure Layout dialog box opens.
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To return all options to their defaults
1.
Click Restore Default.
The Restore Default Setup dialog box opens.
2.
To reset the default values for only the options in the selected category (in this case, the Structure pages), select the Only for Active Category option.
–or–
To reset all the settings in the Options dialog box to their defaults, select the All Categories option.
3.
Click OK.
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To display carbon symbols
In the Atom area, select the Show Carbon Symbols check box.
Carbon symbols are displayed in the Sample area.
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To display hydrogen symbols
In the Atom area, select the Show Hydrogens Automatically check box.
Hydrogen symbols are displayed in the Sample area.
By default, the Structure Editor displays hydrogen symbols for heteroatoms only. It does not display the symbols for hydrogen atoms attached to carbon atoms.
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To display the symbols for hydrogen atoms attached to carbon atoms
In the Atom area, select both the Show Carbon Symbols and the Show Hydrogens Automatically check boxes.
Hydrogen symbols and hydrogen atoms attached to carbon atoms are displayed in the Sample area.
When you draw non-isotopic explicit hydrogen atoms, the application removes them in the Fragments and Mechanisms module because they can make the mechanism network unclear, especially for complex hydrogen rearrangement steps. A substructure search ignores the number and positions of hydrogen atoms.
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To edit the font for atoms
1.
The Font dialog box opens.
2.
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To change the appearance of bonds
In the Bond area, select the Length, Thickness, or Color for your symbols.
Tip  (For black-and-white print only) If you have set bright colors for bonds or atoms, the lines and fonts might appear indistinct. To avoid this problem, specify darker colors for all structural items, including spectra, chromatograms, and mechanisms.
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To change the color of the background and selected atoms
1.
Click the Additional tab.
The Additional page of the Structure Layout dialog box opens.
2.
a.
When you copy the structures to the Clipboard or print the structures, the background color remains white.
b.
Use the Sample area to identify an appropriate combination of colors for the background and selected atoms.
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To enter a text note
1.
Click the Text button, .
2.
3.
4.
You can label a structure or display a text note on the screen or on the printout. You can create up to 127 separate text notes. To change the font, color, size, or background of the text notes, see To change the text notes.
Note  Text notes are not associated with structures. The Open, Save, Copy, and Paste commands apply only to structures. When you use these commands, the Structure Editor ignores the text notes even when you select a structure together with a text. Additionally, you can perform structure-handling routines, such as resizing, rotating, or mirroring only on structures.
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To change the text notes
1.
Click the Additional tab.
The Additional page of the Structure Layout dialog box opens.
2.
The Font dialog box opens.
3.
4.
a.
Select the Text Box check box.
b.
Example filled text box:


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Related Topics:
  Working with the Structure Editor
  Using Templates
  Modifying Atoms and Bonds
  Using Toolbar Functions
  Displaying the Monoisotopic Molecular Mass
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