Molecular docking, Autodock vina

Question

[krishavc92]

how to save pdb file from autodock vina docking result

I am visualizing autodock vina results using PyMOL:

I open out.pdbqt (containing 9 docked conformations of ligand) I open pr.pdb (containing protein structure)

I want to have 1 pdb file containing one of conformations of ligand (for example number 1 which is the best pose) + protein structure. To this, I used File, Save molecule,

How to select both of them?

Any help will highly appreciated?

Answer 1

[db42]

You can that using Discovery Studio, opening both receptor and ligand (pdbqt) files and saving them as a single pdb file.