Computer Molecular Models
When you click Submit (at the bottom of this web page) it will save your
work on the server for me.
DO NOT Click submit more than once!
TAB OR USE THE MOUSE Between the
Answer the questions as best you can. The boxes will expand as you type if you need more space.
(Don't worry if it is a one word answer. The box size is standard.)
(Include all the names in your group.
Maximum group size = 3.
Open the folder called "Rasmol." For each of the molecules listed in the
questions below double click on the molecule in the folder. It will open in
Internet Explorer. It will probably give you security warnings. Click to allow
the page to open. You can right click to access the viewing options.
Spend a couple of minutes “playing” with the program so
that you can easily call up molecules and compare them. You should be able to
rotate molecules, zoom in on them etc.
Right click and choose display. Choose ball and stick
(it is easier to visualize molecules that way).
Question 1: Look at the following inorganic molecules and briefly describe
them (linear, polar/non-polar etc.)
Ammonia, water, carbon dioxide, oxygen, ozone.
Question 2: What does a line represent in these molecules? What are the
color conventions in the computer models and how are they different from the
color conventions in the plastic models?
Question 3: Compare methanol, ethanol, 1-propanol. What makes an alcohol an
Question 4: Look at D-Glucose, D-Fructose, lactose, and sucrose. Are sugars
polar or non-polar? What is a disaccharide?
Question 5: Look at oleic acid, palmitic acid and the two triglycerides (one
with 2 unsaturated fatty acids and the other with all saturated fatty acids.
What is the general structure of a lipid? Is is polar or non-polar? What is
the difference between saturated and unsaturated fatty acids?
Remember, the boxes will expand as you type if you need more space.
Question 6: Look at glycine, alanine, cysteine, gly-gly and the hexapeptide
What is the general structure of an amino acid? What is a peptide bond? Why
are proteins important?
Question 7: Look at ribose and deoxyribose. How are they similar? How are
Question 8: Look at purine and pyrimidine? How are they similar? How are
Question 9: Look at uricil, thymidine, cytosine, guanine, and adenine. How
are they similar? Different? Assign each of them to a category as either a
purine or pyrimidine.
Question 10: Why would we use computer visualizers rather than plastic