src/03_follow_github_instructions.py

# Converting the 111 downloaded mmCIF structures to cleaned PDB files

# After downloading 111 missing mmCIF files using `02_fill_missing_CIFs.py`, we followed the official SAAINT-DB GitHub pipeline to:

# 1) convert mmCIF files to PDB format, and  
# 2) remove ligands from the resulting structures.

# To reproduce this step, first install the SAAINT repository:
# https://github.com/tommyhuangthu/SAAINT

# Then follow the “Building SAAINT-DB” instructions and run the corresponding terminal commands on the 111 mmCIF files:
# https://github.com/tommyhuangthu/SAAINT/tree/main?tab=readme-ov-file#building-saaint-db