Solution
for JSmol Exercise 5:
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![](../../info/images/mouse-right-button.jpg) |
Hold down the right mouse button with
pointer over the image for the following JMol
popup menu
selections: |
1.
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Style/Structures/Backbone
Show
me |
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This step exposes the polypeptide
backbone and hides the "clutter" from the sidechain atoms. |
2. |
Set Picking/Label
Show me |
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After clicking on the left end of the
polypeptide, "[Tyr1].CA" appears over the alpha carbon of a
tyrosine at position 1, which there corresponds to the N-terminal
residue. |
3. |
Style/Labels/Position Label on Atom/Lower
Left
Show me |
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The default label position is
centered on the atom "picked" and the default label color
is the atom color, both of which make the labels difficult to read.
Thus, it is useful to reposition the label for easier reading. (The
label font size and color can also be altered with specific commands that
will be introduced later.) |
4. |
Label the C-terminal end by "picking."
Show me |
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After clicking on the right end of the
polypeptide, "[Lys38].CA" appears over the alpha carbon of a
lysine at position 38, which corresponds to the
C-terminal residue since it is the last shown. By deduction, the polypeptide is
38
residues in length. |
5. |
Popup label an atom by hovering over
it.
Show me |
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Note that a similar label on yellow
background - "[Lys38].CA #299" - appears when you hover the
mouse pointer over any atom, as illustrated in the static image; #299
corresponds to the 299th atom listed in the PDB file for this structure. |
Note there are other easier ways
to find this information using a "Command box" which will be introduced
later. |