Sub-Menu - Model Mode [Display menu]
This sub-menu switches between the four types of representation supported by ATOMS. The Standard and Ellipsoid modes can be drawn either in the 2D or 3D Drawing modes (Drawing Mode Sub-Menu), but Cavities and Protein are 3D only
Standard. This is the main Model mode in ATOMS, which supports ball-and-stick, interpenetrating atoms, polyhedra and wire-frame representations, or combinations of all of these, ranging from simple schematic drawings to fully-shaded three-dimensional drawings. Generally, this mode is most suitable for drawings in published works.
Thermal Ellipsoids. This mode shows thermal ellipsoids in the style of ORTEP, the classic plotting program by Carroll K. Johnson. Note that ellipsoid may also be drawn in the 3D Drawing modes.
Cavities. This shows the cavities or "open space" in a single unit cell, using the current atomic radii. This mode uses the 3D OpenGL system capabilities.
Protein. This mode, which is a 3D Drawing Mode only, only works on data imported from PDB files. It displays the bonds between protein backbone atoms as cylinders, with the radius specified in the Protein Display Attributes dialog. By default, other atoms in the amino acids or residues are omitted, but you can specify a limited number of specific residues to draw in the ball-and-stick mode in the Protein Display Attributes dialog. Hetatoms (non-residues) are always drawn as ball-and-stick.
The choices in this submenu are also in the Dialog Bar - Left which is controlled from the Display menu.
Switching from Standard or Ellipsoid modes to either the Cavities or Protein model modes, which are 3D only, will automatically change the Drawing Mode option to 3D Single.