What Is PyMol

This section provides a quick introduction of PyMol, a powerful molecule visualization software.

PyMol is a powerful molecule visualization software with the following main features:

PyMol was originally written by Warran Delano in Python in the early 2000's and released as an open-source project.

Unfortunately, Warren passed away in 2009. PyMol is maintained now by Schrodinger with 2 editions: free academic edition and commercial edition.

For more information, visit PyMol Website at pymol.org.

Table of Contents

 About This Book

 Introduction of Molecules

 Molecule Names and Identifications

 Protein and Amino Acid

 Nucleobase, Nucleoside, Nucleotide, DNA and RNA

 Gene and Chromosome

 Protein Kinase (PK)

 SDF (Structure Data File)

 RDKit: Open-Source Cheminformatics Software

PyMol Installation

What Is PyMol

 Install PyMol Incentive Edition on macOS

 Install PyMol Open Source Edition

 Compile PyMol Source Code

 Install Open Source PyMol with Homedrew

 Install Open Source PyMol with Fink

 PyMol GUI and CLI

 PyMol Selections

 PyMol Editing Functions

 PyMol Measurement Functions

 PyMol Movie Functions

 PyMol Python Integration

 PyMol Object Functions

 ChEMBL Database - European Molecular Biology Laboratory

 PubChem Database - National Library of Medicine

 PDB (Protein Data Bank)

 INSDC (International Nucleotide Sequence Database Collaboration)

 Resources and Tools

 Molecule Related Terminologies


 Full Version in PDF/EPUB