I have generated proteins structure of capsid protein of two strains of viruses. I have modeled them showing Coulombic electrostatic potential described below where positive charge is blue and negative charge is red. I have opened them in two separate windows for comparison. I have following two issues:
How can I keep two molecules on the same plane when they are opened in two windows. Is there any function that lets us know which side or which angle the molecule is facing so that I can keep both molecules at same position for comparison.
I was able to label residue on the surface. But whenever I move the molecule some of the residue start moving and some remain static. I want to show that there is difference is electrostatic potential because of difference in the residue at some particular site. I have not been able to do that because those residue keep moving haphazardly?
It would be great if someone could help me with this.