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VMD is distributed free and developed by the NIH and is one of the most widely used pieces of molecular visualisation software in the world. It can be downloaded for free at: www.ks.uiuc.edu The protein data band is run by the Research Collaboratory for Structural Bioinformatics: www.pdb.org Start vmd and Goto extentions, data, pdb database query type in the accession code 1hho and click on load into new molecule in vmd go to graphics - represenations delete the 'all', and type 'proteins' then hit return (all case sensitive) There you go there's the amino acids of your hemoglobin protein! Now lets find the magic heme that gives it that excellent ability to carry oxygen and click on create rep (representation), now type in 'resname HEM' and change the draw method to VDW, thats van der waals (all case sensitive). The green guy in the middle is the iron. That's where the oxygen binds. and when it does that's what gives your blood its red color. Change the protein representation from lines to new ribbon, and change the color method from name to chain. Now we can see that in this protein structure there are actually two molecules! each one with a heme group. Now lets find our oxygen. Click on the hem representation and click and add 'OXY' to it, then hit return! There you go... oxygen... without this protein, your blood would only be able to carry about 1 hundredth of the oxygen it does. You have about a million million red blood cells pumping around your body, each one of ...