Calculate distance in Angstrom of predicted Protein-DNA interaction .
configure and run PDI.py
Important: make sure that on the Alphafold3 webserver, you model the protein first, and the DNA strands as second and third. This will in the .cif file lead to protein being strand A, and DNA strand B and C.
Files to test the script can be found in the ExampleSet folder of this repository. Note that files need to unzipped to run the script.