Using this tutorial:
 This website runs the Jmol molecule viewer. You will need a Java-enabled browser to view this website. Refresh your browser to resize applet to your screen size.

You can follow the tutorial below while watching short animated scripts by clicking the appropriate buttons.  At anytime, if you want to change the view of the structure, do the following:
Rotate: Click on mouse and drag
Zoom: Scroll wheel on your mouse or +Shift and left click
Move: +Ctrl and right click

If you are familiar with RasMol commands, you can also use them through the JMol console.

Default model view

Backbone 350, sidechains wireframe 300

Protein backbone:

Residues 2-85 colored blue

Residues 86-122 colored light blue (dimer interface)

Residue 123 colored red (carboxyl terminus)

Sidechains:

Residues 53, 83, 102 (Switch residues) have backbone colored green and sidechains in CPK

Residues 91, 115, 117, 122 colored blue (positive residues)

Residues 96, 100, 101, 111 colored red (negative residues)

Residues 92, 95, 114 colored pale purple (hydrophobic residues)


View single chain

Tutorial and scripts prepared by Susan Contess

PDB File: 1ZES

Bachhawat, P.,  Swapna, G.V.,  Montelione, G.T.,  Stock, A.M. (2005) Mechanism of Activation for Transcription Factor PhoB Suggested by Different Modes of Dimerization in the Inactive and Active States. Structure 13: 1353-1363