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.
Wild-Type CSP    Center 18  Highlight 18  zoom	Mutant CSP   Center 18  Highlight 18  zoom	Antibody-Hapten    zoom
How to use this page for PS4: The buttons below each window control the display in the above window. Q2: Use the structure of the CSP proteins to determine where the Ile (and its Ala substitution) are located in the protein. Click on "Center on 18 to zoom in a bit, with residue 18 in the center. Click on "Highlight 18" to put a transparent surface on residue 18. Q4 'zoom' will give you a bigger view of the complex. The hypervariable loops are colored yellow (light chain) and cyan (heavy chain). Three sidechains from the antibody are shown in ball and stick and colored CPK (carbon light grey). The carbons on the bound hapten are colored dark grey. 'Surface' will show the van der Waals radius of two residues that are involved with binding the hapten. "Hapten +/-" will remove and add the hapten "Hapten Surface +/-" will add a surface/remove to the hapten.