Chem3D Users Manual - CambridgeSoft

Model Type
Ribbons
Description
Ribbons models show
large protein molecules
in a form that highlights
secondary and tertiary
structure. Ribbon models
can be colored by Group
to help identify the
amino acid constituents.
Your model must have a
protein backbone in
order to display ribbons.
To display solid spheres by default on all atoms:
1. From the File menu, select Model Settings.
2. Select the Atom Display tab.
3. In the Solid Spheres section, click the Show By
Default checkbox.
Atom
Display
tab
Show solid
spheres by
default
Cartoons
Cartoon models, like
Ribbon models, show
large protein molecules
in a form that highlights
secondary and tertiary
structure.
The following caveats
apply to the Ribbon and
Cartoon model display
types:
• They do not provide
pop-up information.
• They should be
printed as bitmaps.
Displaying Solid Spheres
In Ball and Stick, Cylindrical Bond, and Space
Filling models, you can display the solid spheres
representing atoms and control their size.in
individual atoms or all atoms.
To change the display of solid spheres in a model:
• From the Model Display submenu of the View
menu, select or deselect Show Atom Dots.
Setting Solid Sphere Size
The maximum radius of the sphere that represents
an atom can be based on the Van der Waals (VDW)
Radius or Partial Charge. To specify which property
to use, select the radio button below the slider.
The VDW Radius is specified using the atom type
of the atom.
The Partial Charge is the result of a calculation:
Extended Hückel, MOPAC, or Gaussian. If you
have not performed a calculation, the partial charge
for each atom is shown as 0, and the model will
display as a Stick model. If you have performed
more than one calculation, you can specify the
calculation to use from the Choose Result submenu
on the Calculations menu.
ChemOffice 2005/Chem3D Displaying Models • 57
Structure Displays