Molecule Tutorials - Herong's Tutorial Examples - v1.21, by Dr. Herong Yang
"show lines" Presentation Command
This section provides a tutorial on how the 'show' command to turn on the 'lines' representation of the loaded molecule structure in PyMol.
Once you have turned and moved your camera to a good angle and a good distance in PyMol, you can use "hide" and "show" commands to change the representation style of the molecule structure.
The simplest representation is called "lines". You can turn it on and off with these commands:
show lines hide lines
Let's load a molecule and show it in "lines" representation:
PyMOL># open a log file to record commands PyMOL>log_open Representation-Show-Lines.pml PyMOL># delete all objects PyMOL>delete all PyMOL># reset viewing parameters to default values PyMOL>reset PyMOL># load my molecule from a file PyMOL>load Molecule-HY-001.sdf CmdLoad: loaded as "Molecule-HY-001". PyMOL># hide all representations PyMOL>hide all PyMOL># show "lines" representation PyMOL>show lines PyMOL># move the camera backward to scale down the representation PyMOL>move z, -5 PyMOL># close the log file PyMOL>log_close PyMOL># re-run all commands in the log file PyMOL>@Representation-Show-Lines.pml
The picture below shows the "lines" representation of a molecule structure:
Table of Contents