User guide

Clean Up Structure
The Clean Up Structure command is used to neaten the appearance of molecules by regularizing bond lengths and
angles. Graphic objects such as arrows and aromatic circles are not affected. You can use this command to redraw
structures that you may have drawn freehand or to neaten structures that you may have imported from another appli-
cation.
For some compounds, the Clean Up Structure command produces a structure that extends beyond the bounds of the
page. To view the entire structure, scale the structure or increase the size of the printed page. See "Scaling objects"
on page 45 and "Page setup" on page 281.
The Clean Up Structure feature follows these rules:
Bonds are set to the target Fixed Length specified in the document settings. For more information see, "Document
settings" on page 273.
A ring is redrawn only if all of its bonds are selected.
Multi-attached atom labels, variable attachment points, and multi-center bonds cannot be cleaned.
Structures are rotated so that as many bonds as possible are directed at a multiple of 15 degrees.
Clean Up Structure preserves stereochemical meaning rather than the precise identity of wedged or hashed bonds,
as shown below.
Using Clean Up Structure:
1. Select the structure or part of the structure to clean up.
2. Go to Structure>Clean Up Structure or type SHIFT+CTRL+K .
Note: The Clean Up Structure command redraws your structure in iterations. Therefore, you may need to select
the command more than once.
ChemBioDraw 13.0
Chapter 3: Basic drawings 47 of 401