ProtoCaller.Utils.pdbconnect module¶

class ProtoCaller.Utils.pdbconnect.PDBDownloader(code)¶

Bases: object

A class which acts as a client to Protein Data Bank.

code¶

The PDB code of the protein.

getFASTA()¶

Downloads the FASTA file from the Protein Data Bank.

Returns: pdb – Returns the absolute path to the FASTA file downloaded from the Protein Data Bank.
Return type: str

getLigands(ligands='all')¶

Retrieves the ligands as SDF files from the Protein Data Bank.

Parameters: ligands (str, [str]) – Either a list of Ligand ID’s to keep or “all”, in which case all ligands are downloaded.
Returns: ligands – A list of the absolute paths of all ligands.
Return type: [str]

getPDB()¶

Downloads the PDB file from the Protein Data Bank.

Returns: pdb – Returns the absolute path to the PDB file downloaded from the Protein Data Bank.
Return type: str