Use this notebook to generate a file in chimera that draws arrows between two PDB models.
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Set up a fresh conda environment with Python >= 3.7:
conda create -n arrows python=3.7 -
Activate the environment:
conda activate arrows. -
Install jupyter, biopandas, and biopython:
pip install notebook biopandas Bio. -
Start jupyter notebook:
jupyter notebook. -
Open the notebook PDBArrows.ipynb.
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Open the notebook to see the instructions. Briefly, the PDB files are parsed and a fasta-format output is generated for you to run a sequence alignment. This is then input to the second part of the notebook to generate a chimera bild file.
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There should only be one chain in each PDB file.
This project is licensed under the MIT License - see the LICENSE.txt file for details.