The color command sets colors of atoms, bonds, ring fill, ribbons, labels (3D), molecular surfaces, VDW surfaces, and nonmolecular surface models. The command ~color sets the color to none (no color assigned); assignments at other levels in the coloring hierarchy may become visible. See also: colordef, ribinsidecolor, scolor, modelcolor, rainbow, rangecolor, transparency, background, set, setattr, msc, coloring
The color_name can be:
The atom-spec indicates which atoms (and/or associated bonds, ribbon segments, surface patches, etc.) should be affected, and a similar specification can be used for nonmolecular surface models. If no specification is given, all applicable items are affected.
In Chimera, visible color is determined by a hierarchy. Color sets atom, atom label, and surface colors at the atom level, and ribbon and residue label colors at the residue level. Modelcolor sets colors at the model level. Surfcolor sets which level is used as the source for visible surface colors; this must be the atom level for color to control the visible surface color.
Transparency can be set independent of color with the transparency command.
color green #2:his- color all histidine residues in model 2 green, as well as any associated labels, ribbon segments, surface patches, etc.
color #ff00ff,r,s #3- color ribbons and surface of model 3 #ff00ff (magenta)
~color,a,l #0:4- remove the color assignments of atoms and their labels in residue 4 of model 0 (the color will default to the model-level color)
color cyan,r helix; color magenta,r strand; color gray,r coil- color protein ribbons by secondary structure