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3D Molecular Literacy Test: Connect-the-Atoms

The interactive Java Mage window below shows a small piece of protein structure with each atom as just a dot. Drag with the mouse slowly from side to side to see the atoms in 3D. Both backbone and sidechains are included, but not H atoms. You might try to identify protruding sidechains as a starting point for connecting the bonds.

Turn on "drawline" in the "tools" pulldown, and click on a suitably-close pair of atoms to draw the covalent bond between them. If you make an incorrect bond, use "undo" to take it away. Proceed, to connect all the dots into a single chain of 12 amino acid residues. [Tips: When you pick an atom its element type will be shown at the bottom of the graphics window, and when you pick the next atom the distance between them in Angstroms will be shown. Covalent bonds between C, N, and O atoms should be no longer than about 1.5 Å. No atom should connect to more than three others, and no bonds should meet at an angle less than about 100°.]

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