Sticks

Overview

A simple PyMol representation where bonds are drawn as sticks. Use

# using the show command, for some SELECTION
show sticks, SELECTION

# using the as command
as sticks, SELECTION

where SELECTION is a valid selection or previously defined selection name.

• 

  Example Sticks Representation

Settings

• stick_ball
• stick_nub
• stick_transparency
• stick_ball_ratio
• stick_overlap
• stick_valence_scale
• stick_color
• stick_quality
• stick_fixed_radius
• stick_radius
• set_bond

Color Sticks

Use set_bond to set stick-bond settings, like color:

set_bond 1foo and i. XYZ, color red

Sticks Radius (Sticks Weight)

To change the radius for sticks, enter the following:

set stick_radius, VALUE

where

0.0<=VALUE<=1.0

• 1.0 is 100% or full radius
• 0.0 is 0% or invisible -- so use at least 0.1 or greater
• The default value is: ~0.3

Sticks Transparency

To enable transparency for sticks, enter the following:

set stick_transparency, VALUE

where 0.0<=VALUE<=1.0

• 1.0 is 100% transparent -- so invisible
• 0.0 is 0% transparent -- so opaque

set stick_transparency, 0.45