Register for an account at
https://www.pdbbind.org.cn/, confirm the validation email, then login and download
the Index files (1)
the general protein-ligand complexes (2)
the refined protein-ligand complexes (3)
Extract those files in pdbbind_complex_GB2022/data
Run the script pdbbind.py in a compute job on an MPI-enabled cluster (e.g., mpirun -n 64 pdbbind.py).
Output will be tar files in train/, val/ and test/ folders, following the split direction which is… See the full description on the dataset page:
https://huggingface.co/datasets/djh992/pdbbind_complex_GB2022.
