bio-pdb-structure-navigation - Navigate PDB protein structure hierarchy
Navigate and access Bio.PDB structure hierarchy levels and extract sequences
Tags
Updated: 2026-05-28Capabilities
Typical Inputs
Typical Outputs
What this skill does
- parse PDB files
- access structure hierarchy
- iterate over models
- iterate over chains
- iterate over residues
- iterate over atoms
- get atom coordinates
- extract sequences
- filter residues
- identify residues
- convert residue names
- handle disordered atoms
- count entities
Inputs
- PDB file
- Chain ID
- Residue ID
- Atom name
Outputs
- Structure model
- Chain
- Residue
- Atom
- Amino acid sequence
- Atom coordinates
Requirements
- BioPython 1.83+
- Python