Published On Aug 28, 2023
In this installment of PyMOL 101, KP talks about CPK coloring and color settings in PyMOL. We’ll learn to change renderings, color them, and apply transparency.
00:00 Intro AND CPK coloring
00:40 Phosphofructokinase background
01:24 Setting up your workspace
02:06 Color by chain
03:23 Color by secondary structure
03:52 Surface transparency
04:51 Color by element
06:05 Terminology break
06:28 Rendering a ligand
07:26 Cartoon transparency
08:14 Overview of the different renderings
REFERENCES:
• https://proteopedia.org/wiki/index.ph....
• PDB ID: 6PFK
• Schirmer, T., Evans, P. Structural basis of the allosteric behaviour of phosphofructokinase. Nature 343, 140–145 (1990). https://doi.org/10.1038/343140a0