đŸ§Ŧ Protein-Ligand Splitter

Split protein-ligand complex PDB into separate protein and ligand files

Upload Complex PDB

ℹī¸ How it works

This tool splits a protein-ligand complex PDB file into separate protein and ligand structures. It scans every individual molecule: standard amino acids are extracted as the protein, while non-standard molecules (excluding water and ions) are extracted as the ligand, regardless of their chain or model assignments.

The output is a ZIP file containing protein.pdb and ligand.pdb.

Note: Ensure your PDB file contains both protein and ligand components in separate chains.

Citation

  • Biopython: Cock, P. J., et al. (2009). Biopython: freely available Python tools for computational molecular biology and bioinformatics. Bioinformatics, 25(11), 1422-1423.