Lines

From PyMOLWiki
Jump to: navigation, search

Lines is name of the basic representation for atoms and bonds in PyMOL. Lines is a very simple representation, where each atom bond is displayed as a single colored line, and each atom is displayed as the intersection of any two or more non-terminal bonds.

Contents

Usage

# show everything as lines
show lines
 
# only show residues 50-80 as lines
show lines, i.50-80

Examples

Example: Displaying dashed lines between two atoms

The following commands will create a dashed line between two atoms.

# first, create two named selections
select a, ///A/501/02
select b, ///B/229/N
# calculate & show the distance from selection a to selection b.
distance d, a, b
# hide just the distance labels; the 
# dashed bars should still be shown
hide labels, d

Technically, the object d is a labelled distance, only the label is hidden. When ray-tracing the image, the dashes come out a bit fat. You can slim them with

set dash_gap, 0.5
set dash_radius, 0.1

before the 'ray' command.

Lines Representation Example

See Also

Please read about other representations in the Representation Category.
Measure_Distance
Distance

Personal tools
Namespaces
Variants
Actions
Navigation
Toolbox