June 2015
Intermediate to advanced
306 pages
6h 50m
English
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Chapter 7. Using the Protein Data Bank
In this chapter, we will cover the following recipes:
- Finding a protein in multiple databases
- Introducing Bio.PDB
- Extracting more information from a PDB file
- Computing molecular distances on a PDB file
- Performing geometric operations
- Implementing a basic PDB parser
- Animating with PyMol
- Parsing mmCIF files with Biopython
Introduction
Proteomics is the study of proteins that includes the protein function and structure. One of the main objectives of this field is to characterize the 3D structure of proteins. One of the most widely known computational resource in the Proteomics field is the Protein Data Bank, a repository with structural data of large biomolecules. Of course, there are also many databases that focus instead ...
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I wanted to learn C and C++, but it didn't click for me until I picked up an O'Reilly book. When I went on the O’Reilly platform, I was astonished to find all the books there, plus live events and sandboxes so you could play around with the technology.Addison B.
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I'm always learning. So when I got on to O'Reilly, I was like a kid in a candy store. There are playlists. There are answers. There's on-demand training. It's worth its weight in gold, in terms of what it allows me to do.