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News & Updates
Official Release PyMOL v2.5 has been released on May 10, 2021.
Python 3 New Python 3 compatibility guide for scripts and plugins
POSF New PyMOL fellows announced for 2018-2019
Tutorial Plugins Tutorial updated for PyQt5
New Plugin PICv is a new plugin for clustering protein-protein interactions and visualization with available data from PDBe
Selection keywords New polymer.protein and polymer.nucleic selection keywords. Thanks everyone who participated in the poll!
Plugin Update MOLE 2.5 is an updated version of channel analysis software in PyMOL
New Script dssr_block is a wrapper for DSSR (3dna) and creates block-shaped nucleic acid cartoons
Older News See Older News.
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Distance

=Distance=

distance creates a new distance object between two selections. It will display all distances within the cutoff. Distance is also used to make hydrogen bonds. Calling distance without arguments will show distances between selections (pk1) and (pk1), which can be set in editing mode or using the PkAt mouse action (usually CTRL-middle-click).

Note: For interactive use, the measurement wizard (from the PyMOL menu) makes measuring distances easier than using the distance command.
If you want to measure distance and avoid creating a distance object, use Get Distance or Distancetoatom.

Example of distance.  See example #1.

Example of distance.  See example #2.

Usage

distance [ name [, selection1 [, selection2 [, cutoff [, mode ]]]]]

name

string: name of the distance object to create

selection1

string: first atom selection

selection2

string: ..→
A Random PyMOL-generated Cover. See Covers.