Get standard name#

Mapping modified or non-canonical amino acid residue names to their parent canonical standard residue.

The function molsysmt.element.group.amino_acid.get_standard_name() resolves modified amino acids (e.g. MSE, SEP, TPO, PTR) to their standard 3-letter equivalent (MET, SER, THR, TYR).

Added in version 1.0.0.

API documentation

Follow this link for a detailed description of the input arguments, raised errors, and returned objects of this function: molsysmt.element.group.amino_acid.get_standard_name().

Basic usage#

Let’s map modified residue names to their standard counterparts:

import molsysmt as msm

modified = ['MSE', 'SEP', 'TPO', 'PTR', 'HSD', 'HSE']
for res in modified:
    std = msm.element.group.amino_acid.get_standard_name(res)
    print(f'Modified residue {res:<4} -> Standard residue: {std}')

Modified residue MSE  -> Standard residue: MET
Modified residue SEP  -> Standard residue: SER
Modified residue TPO  -> Standard residue: THR
Modified residue PTR  -> Standard residue: TYR
Modified residue HSD  -> Standard residue: None
Modified residue HSE  -> Standard residue: SER