Tutorial_Pymol_3: Structure Editing in Pymol

PyMOL is a powerful molecular visualization software that also allows users to edit molecular structures. Here are some ways to edit structures with PyMOL:

If you are new to Pymol, I would recommend practicing here. I can also recommend you slightly expert-level tutorial here.

1. Add Atoms and Residues: To add atoms or residues to a structure, use the "Builder" function. First, select the residue or atom you want to add to. Then, go to "Wizard" > "Builder" and choose the atom or residue to add.

2. Delete Atoms and Residues: To delete atoms or residues from a structure, use the "Delete" function. First, select the atoms or residues you want to delete. Then, go to "Actions" > "Delete" and confirm the deletion.

3. Mutate Residues: To mutate a residue to another amino acid, use the "Mutagenesis" function. First, select the residue you want to mutate. Then, go to "Wizard" > "Mutagenesis" and choose the new amino acid.

4. Modify Bond Lengths and Angles: To modify bond lengths and angles, use the "Edit" function. First, select the bond or angle you want to modify. Then, go to "Edit" > "Bond/Angle" and enter the new value.

5. Add Hydrogens: To add hydrogens to a structure, use the "Hydrogens" function. First, select the atoms to add hydrogens. Then, go to "Actions" > "Hydrogens" and choose the hydrogenation method.

6. Merge Structures: To merge two or more structures into one, use the "Combine" function. First, load the structures into PyMOL. Then, go to "Actions" > "Combine" and select the structures to merge.

These are just a few examples of the many ways to edit structures with PyMOL. PyMOL offers a wide range of tools and functions for molecular visualization, analysis, and editing.