Mutagenesis

PyMol has a Mutagenesis Wizard to make mutagenesis very easy for the end user.

In rotkit, a function has been made to call a mutagenesis.

As of PyMOL version 2.2, users may now perform base mutations in nucleotide chains.

Walk-through

To mutate a residue follow these easy steps:

Load a PDB file
Under the Wizard menu select Mutagenesis
In the PyMol viewer window select a residue
Select No Mutation and select resultant residue
Selecting the rotamer you think better fits your structure.

Several side chain orientations (rotamers) are possible. You can use the back-and-forth movie controls (lower right corner) to display (in white) each of the rotamers available for this residue in PyMOL, whose current and total numbers are shown in the (green) Frame info. The rotamers are ordered according to their frequencies of occurrence in proteins, shown as a red percentage at the mutation object, which exists while mutagenesis is being performed.
Select Apply
Select Done