Command: preset

Usage:
preset [ category ]  preset-name

A preset is a predefined combination of display settings, or more generally, a set of actions that can be defined by the user. The built-in presets act only on atomic models, and those in the Cartoons/Nucleotides and Initial Styles categories hide any molecular surfaces. They are not all-encompassing (results depend on prior settings), and those which are more render-intensive may be slow to execute on very large structures. Presets can also be applied using the Presets menu. See also: alias, lighting, graphics, mcopy, Graphics Toolbar, making images

• Cartoons/Nucleotides
  • Ribbons/Slabs – cartoon style initial defaults + nucleotide bases as rectangular boxes
  • Cylinders/Stubs – cartoon style protein α-helix cylinders + nucleotide stubs (half-rungs)
  • Licorice/Ovals – cartoon style without 2°-structure detail + nucleotide bases as ellipsoids
• Custom – user-defined presets
• Initial Styles – based on automatic styling
  • Original Look - initial appearance from automatic styling, which depends on the number of chains in an atomic structure (however, settings such as silhouettes and cartoon style may be different if they were changed since the structure was opened)
  • Sticks – all atoms as sticks, simple lighting, etc. (as for automatic styling of structures with 0 chains)
  • Cartoon – cartoon plus atomic detail near residues classified as ligand and ions, simple lighting, etc. (as for automatic styling of structures with 1-4 chains)
  • Space-Filling (Chain Colors) – all atoms as spheres except sticks for ligand and balls for solvent, chain colors, shadows, etc. (as for automatic styling of structures with 5-249 chains)
  • Space-Filling (Single Color) – all atoms as spheres, ambient-only lighting, etc. (as for automatic styling of structures with ≥250 chains)
• Molecular Surfaces – molecular surfaces with different coloring options:
  • Atomic Coloring (Transparent) – same color(s) as the underlying atoms, 70% transparent
  • Chain ID Coloring (Opaque) – chain colors, opaque
  • Ghostly White – white, 80% transparent
• Overall Look
  • Publication 1 (silhouettes) – silhouettes on, depth-cueing off, background color white
  • Publication 2 (depth-cued) – depth-cueing on, silhouettes off, background color white
  • Interactive – depth-cueing on, silhouettes off, background color default (user preference)

The preset-name (and optional category before it) can be truncated, and capitalization is ignored. Each can be specified as a unique string occurring anywhere in the full name, but should be enclosed in quotation marks if the part that is entered includes spaces. If the string given occurs at the beginning of one name and in the middle of another, the name beginning with the string will take precedence. Examples:

preset sil    → publication 1 (silhouettes)
preset depth    → publication 2 (depth-cued)
preset 1    → publication 1 (silhouettes)
preset cylinders    → cylinders/stubs
preset ribbons    → ribbons/slabs
preset inter    → interactive
preset orig    → original look
preset surf atom    → molecular surfaces / atomic coloring (transparent)
preset ghost    → ghostly white

Matching is prioritized as follows:

1. If a single argument (word or quoted string) is given, it is matched to preset name, any category.
2. If multiple arguments are given:
   1. If the first argument matches a category, the rest is matched to preset name.
   2. If a match still has not been found at this point, the entire set of arguments is matched to preset name, any category.