Retrieve / Generate Naive PDB test structures for neighbor search algorithm (Biopython)
I am implementing a script in python (using biopython) that retrieves residues of interfaces on RNA molecules.
i.e. I use the Bio.PDB.NeighborSearch module to look for atoms which are close enough within a 10 angstrom cutoff then I get the RNA residues that are interacting with another chain in the structure of that set.
I feel like my script is working but I want to do some rigorous testing.
How can I generate naive test PDB structures? Or is there a set of structures with known interfaces?
I would like to get test structures with (ligand/protein/rna/ion) - RNA known interfaces.
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jonbroad15 •
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