biotite 0.39.0__cp312-cp312-win_amd64.whl → 0.40.0__cp312-cp312-win_amd64.whl

biotite/structure/info/amino_acids.py

@@ -1,42 +0,0 @@
-# This source code is part of the Biotite package and is distributed
-# under the 3-Clause BSD License. Please see 'LICENSE.rst' for further
-# information.
-
-__name__ = "biotite.structure.info"
-__author__ = "Tom David Müller"
-__all__ = ["amino_acid_names"]
-
-import json
-import numpy as np
-from os.path import join, dirname, realpath
-
-
-_info_dir = dirname(realpath(__file__))
-# Data is taken from
-# ftp://ftp.wwpdb.org/pub/pdb/data/monomers/components.cif
-# (2022/09/17)
-# The json-file contains all three-letter-codes of the components where
-# the data item `_chem_comp.type` is equal to one of the following
-# values:
-# D-PEPTIDE LINKING; D-PEPTIDE NH3 AMINO TERMINUS; 
-# D-beta-peptide, C-gamma linking; D-gamma-peptide, C-delta linking; 
-# D-peptide NH3 amino terminus; D-peptide linking; 
-# L-PEPTIDE COOH CARBOXY TERMINUS; L-PEPTIDE LINKING; 
-# L-beta-peptide, C-gamma linking; L-gamma-peptide, C-delta linking; 
-# L-peptide COOH carboxy terminus; L-peptide NH3 amino terminus; 
-# L-peptide linking; PEPTIDE LINKING; peptide linking
-with open(join(_info_dir, "amino_acids.json"), "r") as file:
-    _amino_acids = json.load(file)
-
-def amino_acid_names():
-    """
-    Get a list of amino acid three-letter codes according to the PDB
-    chemical compound dictionary.
-
-    Returns
-    -------
-    amino_acid_names : list
-        A list of three-letter-codes containing residues that are
-        peptide monomers.
-    """
-    return _amino_acids