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Protein-substrate docking
Protein-Substrate Docking >>Change forces >>Change shapes
This model shows a docking process. The hyperlinks on this page show two other models in which docking cannot take place. First click play and observe the interactions between the molecules. When you are finished answer the questions on your worksheet.
Once you have observed the above model and answered the related questions read and complete the following.
The following links will allow you to observe what happens if properties of either molecule are changed. Molecular recognition is influenced by attractive interactions between sites and shape complementarities. For example, if either one of the charges (or both) are removed, docking may not happen, or happen much more slowly (due to the weak van der Waals interactions between the complementary shapes, they may still have some chance to get together).
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<font size="3" face="Verdana">"Despite being weakened by water and salt,
ionic bonds are very important in biological systems; an enzyme that binds
a positively charged substrate will often have a negatively charged amino
acid chain at the appropriate place." </font>
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<font size="2" face="Verdana">------ p. 93, Molecular Biology of the
Cell, 3rd edition, Alberts et. al.</font>
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