Monday, February 17, 2014

Assignment #1: due Monday, March 3

For your first assignment, you must explore different ways to represent your protein and then post pictures to your blog. Provide the PDB number for any structures in your post. 

Try cartoons, space-filling representations, sticks. Highlight prosthetic groups. Change the colors by secondary structures, chains, chainbows, etc.Use at least two different background colors (under the [Display] pulldown, and examine different use of [color space] from [Display].

Post 5 different representations by the end of the day on March 3. Your assignment is not complete until you have posted your blog address on the Protein of the Year sign up page on Google docs.

Monday, February 10, 2014

Protein of the Year assignment overview

For your Protein of the Year assignment you will need to convince your classmates that your protein is fantastic due to its biochemistry. Your goal is to add your name to the coveted Jane Richardson Cup alongside the previous years' winners Ian Robertson, Alex Harris, and Anand Divakaran. To do so, you will generate a web page via Blogger that will show off your protein. Though some proteins can make a convincing case on their own with their structures, you will want to enhance your case by pointing out what makes your protein the best. Though you need not follow the template, feel free to examine the pages for these proteins to give you an idea of what to show:
Each student will pick a unique protein (first come, first served), which you will post on Google docs. You will not be able to choose any of the following proteins already in the Hall of Fame: ribonuclease inhibitor, alpha-hemolysin, anthrax toxin, salmonella needle complex, nitrogenase, or hemagglutinin. I have posted a Google document for your sign up starting at 5:00 PM on Wednesday, Feb. 12, and student choices will be awarded in the order in which you have signed up. Let me know ASAP if you cannot access the signup.

In the meantime, each of you should start your own blog on blogger (you should be able to find instructions from this page...let me know if you're having trouble), and then make sure that you're able to post comments. Look around for proteins of interest, whether they be from the Protein Data Bank, your research, the textbook, etc., and find a backup or two in case someone chooses your protein before you.

Here are a few links you may find useful:

For resources, you may use the Molecule of the Month site from the Protein Data Bank, Proteopedia, primary literature, this link from our Moodle page with highlights from protein crystallography, wikipedia, other web pages, etc., but all of your work must be original. Plagiarism will be dealt with according to Calvin policy; if you are in doubt, please ask. More details, including deadlines, will be coming soon.