Mutations with SDF File Parser?

[ayushkarnawat]

Should on-the-fly point mutations when parsing 3D structure files (i.e. SDF or PDB files) be allowed? Currently parsers that only process sequences, like residue strings or SMILES strings, are able to mutate residues at specified positions (using PDBMutator) to their choice of primary or tertiary structure.

The problem lies in that the PDBMutator can currently mutate only structures/sequences that have an associated PDB id (see #9 for more information). To work with passed in structures/sequences, the mutator should allow for mutating arbitrary sequences/structures (see #7) and not rely solely just on the PDB id.