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Useful Buttons:
Toggle sidechain atoms on/off
Toggle labels (Mainchain N) on/off
Toggle cartoon on/off
Toggle color structure on/off
Jmol Hints:
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To find the composition, use the right mouse button to open the menu. Then "Select→Protein→By Residue Name". The number of each amino acid is given in the list (amino acids in gray are not present).
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To measure a distance, try: menu → Measurement → Click for distance measurement. Then click on two atoms and the distance between them will appear on the screen.
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"Mouse over" an atom to identify it, the first number is the residue position from the amino terminus, e.g. [Gly]22 indicates a Gly residue at position 22.
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To identify helix and sheet by color, try: menu → Color → Atoms →By Scheme → Secondary Structure.
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To center on a specific atom, try: menu → set picking → Center, and then click on the atom that will be the new center. To restore labeling of atoms, try: menu → set picking → Identity.
CPK Color Scheme:
blue - nitrogen |
red - oxygen |
gray - carbon |
yellow - sulfur |
hydrogen - white
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