Monday, February 21, 2011

updated protein list--look here first


Please double check this list to see if I have your protein correct.

First, these are the proteins that had been selected but are now available:
angiotensin-converting enzyme
clathrin
tryptophanyl-tRNA synthetase
DNA ligase

Here is the list of selected proteins:
albumin
aquaporin2
Bacteriorhodopsin
bifunctional enzyme
botulinum toxin
calmodulin
dipeptidyl peptidase IV (DPPIV)
DNA helicase
DNA polymerase
dystrophin
fibrin
glutamine synthetase
hemoglobin
HIV-1 protease
IgG
influenza neuraminidase
insulin
kinesin
Lactate Dehydrogenase
Luciferase
lysozyme
malate synthase
Mechanosensitive Channel of Small Conductance (MscS)
nitric oxide synthase
nitrogenase
NORTH-ATLANTIC OCEAN POUT ANTIFREEZE PROTEIN
Pentalenene Synthase
POT1 protection of Telomeres protein 1
Riboflavin synthase
RuBisCO
snow flea antifreeze quasi-racemate
telomerase
reverse transcriptase
thrombin
topoisomerase
triose phosphate isomerase
troponin

Friday, February 18, 2011

Assignment #1, Due Wednesday, March 2


For you first assignment, you must explore different ways to represent your protein and then post pictures to your blog. 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 2. Your assignment is not complete until I have received your blog address--I will post a comment on your blog to confirm that I have received it.



This assignment is worth 5 points.

Thursday, February 10, 2011

sign up here for Protein of the Year (post 2)


The following proteins are no longer available, though many other great choices remain:

angiotensin-converting enzyme
clathrin
DNA helicase
DNA ligase
DNA polymerase
fibrin
glutamine synthetase
IgG
influenza neuraminidase
Luciferase
lysozyme
nitric oxide synthase
nitrogenase
POT1 protection of Telomeres protein 1
Riboflavin synthase
snow flea antifreeze quasi-racemate
telomerase reverse transcriptase
thrombin
topoisomerase
triose phosphate isomerase
troponin
tryptophanyl-tRNA synthetase

Wednesday, February 9, 2011

sign up here for Protein of the Year (post 1)



Sign up in the comments section for your choice of proteins starting at 12:30 PM on Thursday, February 10. If others are already signed up, you can do a search for your protein name to make sure it is still available. At convenient times I will collate and alphabetize the proteins that have already been selected; you'll find these in a new post to make your selection easier.

Once you sign up, you are not locked into that protein permanently, but you need to make the change here (or on a following post) so that others know what new protein you have and that your previous protein is now available.

Friday, February 4, 2011

Protein of the Year assignment


For your Protein of the Year assignment you will need to convince your classmates that your protein is fantastic. Your goal is to win the coveted "Protein of the Year" prize. (The prize is the fame and bragging rights...don't count on getting cash.) 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). You will not be able to choose any of the four listed above, nor can you choose leghemoglobin, methlymalonyl-CoA mutase, COX1 & COX2, or catalase. I will post a sign up blog and let you know the start time, and student choices will be awarded in the order in which you have commented--watch for more details.

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 protein from last semester, 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, primary literature, 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.