deepfold.common.protein.from_pdb_string¶

deepfold.common.protein.from_pdb_string(pdb_str: str, chain_id: str | None = None) → Protein[source]¶

Takes a PDB string and constructs a Protein object.

WARNING: All non-standard residue types will be converted into UNK. All: non-standard atoms will be ignored.

Parameters:

pdb_str – The contents of the pdb file
chain_id – If None, then the whole pdb file is parsed. If chain_id is specified (e.g. A), then only that chain is parsed.

Returns:

A new Protein parsed from the pdb contents.