Surfaces
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Molecular surfaces can be visualized.
Five color schemes are available for surfaces:
- Color by Charge Charged amino acids close to the surface will show as red (negative) or blue (positive) areas on the surface, with a color gradient that depends on the distance of the charged atom to the surface.
- Color by Element Smoothed out coloring based on the classic CPK coloring of the heteroatoms close to the surface.
- Color by Temperature Smoothed out coloring based on the temperature values assigned to atoms close to the surface (See the "Wireframe, Stick, Ball and stick, Space-filling/CPK" section above).
- Color by Entry Each surface is assigned its own specific color.
- Custom Color The user selects a surface color from a palette.
A surface spanning multiple molecules can be visualized by making a custom atom group that includes all atoms from the molecules (see Custom atom groups)