![]() The Mini-Toober should be used to build the alpha carbon backbone.Which sections of the structure are on the same plane? Rotate the molecule in the viewer, and try to match your model with what you see on screen.Out of the amino acids, which ones are involved in the function of the protein? What is the protein's "story"?.The scale used should be 2 cm = 1 amino acid.It's also a good idea to mark it somehow, and to explain that marking in your abstract. Beta sheets can be difficult to show-you can make little "bumps" in the toober.Which direction should the helices go in?.It helps to have something to wrap the toober around to make the helices - try taping 3 pencils together to get the right width.The toober represents the backbone of the protein you'll want to show the beta sheets and alpha helices.Red End Cap indicates the C-terminal end (ends with a free carboxyl group (-COOH)).Blue End Cap indicates the N-terminal end (ends with an amino acid with a free amine group (-NH2)).Then you can note where these amino acids are on your toober. Using a molecular graphics viewer ( like this enhanced version of Jmol), you should be able to find which amino acid marks the start and which marks the end of each element. Not sure what a PDB file is? This great video illustrates the connection between the PDB file and the 3D model. Diversity, Equity, Inclusion, and Accessīeginner? This video demonstrates how to build a toober model - great practice for the prebuild and onsite builds at the Olympiad.Exploring the Structural Biology of Cancer.
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