I am trying to investigate the protein surrounding a docked (autodock-vina, alpha chimera 1.1 build 40505 linux 64) ligand. I am interested in the environment of specific atoms of the ligand.
With command
sel #1.1@N z<5
I can investigate the protein at 5A from BOTH nitrogen atoms of model 1.1.
How to select one of the two existing N atoms in the ligand? Same questions for other ligand atoms (there are many O-atoms)