This workshop is an introduction to protein structure data in the Protein Data Bank (PDB) and how to process it for data extraction. I presented a brief introduction to the Protein Data Bank and how protein structure data is organised. I focused on .pdb files and tools to process them. Here I covered biopython to parse protein structure data from the PDB and nglviewer as an alternative for data visualisation.
- Python 3.6
Using pip:
pip install -r requirements.txt
jupyter notebook
All the examples are available in the notebook biopython_nglviewer.ipynb.