Difference between revisions of "Lines"
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| − | ==Displaying dashed lines between two atoms== | + | =Overview= |
| + | '''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. | ||
| + | |||
| + | =Usage= | ||
| + | <source lang="python"> | ||
| + | # show everything as lines | ||
| + | show lines | ||
| + | |||
| + | # only show residues 50-80 as lines | ||
| + | show lines, i.50-80 | ||
| + | </source> | ||
| + | |||
| + | ==Examples== | ||
| + | ===Example: Displaying dashed lines between two atoms=== | ||
The following commands will create a dashed line between two atoms. | The following commands will create a dashed line between two atoms. | ||
<source lang="python"> | <source lang="python"> | ||
| + | # first, create two named selections | ||
select a, ///A/501/02 | select a, ///A/501/02 | ||
select b, ///B/229/N | select b, ///B/229/N | ||
| + | # calculate & show the distance from selection a to selection b. | ||
distance d, a, b | distance d, a, b | ||
| + | # hide just the distance labels; the | ||
| + | # dashed bars should still be shown | ||
hide labels, d | hide labels, d | ||
</source> | </source> | ||
| Line 18: | Line 35: | ||
[[Image:Lines_ex.png|thumb|Lines Representation Example]] | [[Image:Lines_ex.png|thumb|Lines Representation Example]] | ||
| − | [[Category:Representations | + | ==See Also== |
| + | Please read about other representations in the '''Representation Category''' (link at bottom of page). | ||
| + | |||
| + | [[Category:Representations]] | ||
Revision as of 12:51, 23 February 2007
Overview
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.
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.
See Also
Please read about other representations in the Representation Category (link at bottom of page).