Uploaded July 2023 | Updated September 2026, 2 days ago

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In this first installment of PyMOL 101, KP teaches you the basics of the PyMOL Graphical User Interface (GUI, pronounced “gooey”). In lesson 1, you’ll learn to:
• Load the biological unit of structures
• Rotate, zoom, and reposition molecules
• Interpret the sequence display
• Zoom in on a feature of a particular structure
• Adjust clipping

CHAPTERS
00:00 - Intro
00:38 - Loading Structures
02:37 - Takeaways from Loading Structures
02:58 - Mouse/trackpad controls
04:10 - Sequence
05:26 - Zooming and Clipping

REFERENCES:
• The PyMOL Molecular Graphics System, Version 2.0 Schrödinger, LLC. (Video made with Version 2.4.2)
• Berman, Helen M., et al. "The protein data bank." Nucleic acids research 28.1 (2000): 235-242. • The Protein Databank Website rcsb.org
• PDB ID: 4mqk (Carbonmonoxy Structure of the Human Fetal Hemoglobin Mutant HbF Toms River alphawtgammaV67M)