NOTES:
Stable intermediates are sometimes
difficult to make, because several bonds
are made or broken.
In this example, the threonine hydroxyl on
Thr1
adds across a peptide bond between
Gly37 and Ala38, resulting in the oxygen
being covalently bonded to the
peptide
carbon forming a tetrahedral
intermediate, and the hydrogen adding
to the peptide nitrogen to form a
Zwitterion.
By using the MM method
in JSmol, this
complicated operation can be performed
in just a few
seconds.
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