I realized that the "mdo" command can be used to change the stick_transparency setting.
mdo 1: set_bond stick_transparency, 0, all mdo 100: set_bond stick_transparency, 0.8, all and so on. I noticed that the example section in the help text for the mdo command is incorrect. It states: > EXAMPLE > > // Creates a single frame movie involving a rotation about X and Y > > load test.pdb > mset 1 > mdo 1, turn x,5; turn y,5; > mplay however, it should read: mdo 1: turn x,5; turn y,5; nick
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