Antibody A: Hapten-Fv Complex
Antibody B: Hapten-Fv Complex
How to identify an atom: You can either hover the mouse over the atom and its identity will appear. You will get something like "[Pro]85". This means that you have hovered over an atom on the 85th residue, which is a Pro.
Alternatively you can right click within the Jmol window to bring up the menu, go to "Set picking/label" and select that option. Now when you click on an atom you will label it.
How to measure distances: Right click over the jmol window to bring up the menu, select "Measurements" and then "Click for distance measurement". Now click on any two atoms.
Warning: The hydrogen bond command will only display protein-protein mainchain hydrogen bonds.
The buttons below each window control the display in the above window.