Links to your classmates' blogs

324a

Links on Life: Pictures of Dicer

Tyler Veldkamp

Emily Diekema_Mechanosensitive Channel of Small Conductance (MscS)

Chelsey Knapper_Awesome Possum Protein

Jared Scripture

Lauren Bylsma_Lauren's Protein of the Year!

Evan Sonderman_Botulinum Toxin

Anna Kim_Tryptophanyl-tRNA Synthetase

Alyson de Walle_choleratoxin

Ian Robertson_A Protein for All Seasons

Katie Faber_All About IgG

Paul Meppelink_Thrombin

Keith Van Dusen_HIV-1 Protease

Frank Carr_My Biochem 324 Protein

324b

Alex Cortez_The Bifunctional Enzyme

Eric Prins_Riboflavin Synthase

Melanie Holtrop_Phosphofructokinase-1

Alex Batt_Troponin: Protein of the Year

Amanda Erwood_Protein of the Year

Betsy Hansen_Albumin

Adam Driscoll_Protein of the Year (2011)

Jacob Artz_Dipeptidyl Peptidase

Gill Morris_Nitrogenase

Alex Wrobel_Protein of the Year--Beta-3 Alcohol Dehydrogenase

Lauren Manck_Bacteriorhodopsin

Josh Stuive_Divalent Metal Ion Transporter

Stacey De Haan_Triose Phosphate Isomerase

Jake Baker_HIV-1 Integrase: Biochem 324 Protein of the Year

Samantha Vue_Beautiful World

Dan Tiesman_Hemoglobin, Protein of the year

Brandon Burkhart_Protein BioLog

Alex Verseput_Aquaporin

Lindsay Rios_DNA Polymerase I

Milton Herrold_Malate Synthase

Allison Sterling_Major Histocompatibility Complex

Chris Bouma_Protein Assignment

Cheri Ackerman_RuBisCo

Dan Oram_Glutamine Synthetase

Christie Timmer

Adam den Boer_Fibrin

Amanda Harris_DNA Ligase

Steve Griffith_biochem: Pics of Lysozyme

Assignment #3: Due Wednesday, April 27

What makes your protein the best? Convince us.

Submit a post to sell your classmates of the beauty of your protein. Include structures, reactions, references, and anything else you need to make your case. Though you should consider this your final version, you will get the chance to respond to the comments from your classmates before your final submission enters the brackets.

This assignment is worth 30 points.

Assignment #2: Due Friday, March 18

For your second assignment, worth 10 points, you need to find and summarize articles describing your protein from the biochemical literature. Find information that tells us something interesting about your protein. What does it do? Does it catalyze a reaction? If so, write out the reaction (you don't need to show structures yet). What does it do for a cell or the organism? Are there diseases associated with it? If you're looking for examples, check out some of those posted in the Virtual Protein Museum, the Protein Data Bank Molecule of the Month site, or the Protein Structure Initiative Featured Molecules page.

You must find a minimum of 3 articles, at least one of which must be a primary research article (you may use review articles for the others). Then you should write a one paragraph summary of the most interesting items from the article--remember, your goal is to convince your friends and family of the beauty or amazingness of your protein. Include a link to the article in your blog post.

Where should you look?

• The Protein Data Bank page for your protein will have a link to the article linked to the structure.
• Another good place to look is the PubMed site. You can look for review articles here, too (these will be a great source of the interesting features of your protein); you can then look for a primary article from the references listed in the review. To look for reviews, select the [Limits] tab and then scroll until you find the [Reviews] tab. For further instructions on PubMed, click here.
• Highwire is another great source for articles. Once you find an article, you can also get a list of other articles that have cited it. This may also help you find reviews.

You need not read the whole article--take a look at the abstract and the introduction (which will have more citations) to see what the authors found about your protein.

If you have selected a protein featured at either the Protein Data Bank Molecule of the Month page or the Protein Structure Initiative Featured Molecules page, you must also cite the source on your blog page.

Post here when you have finished.

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

anthrax

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

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.

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

aquaporin2

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

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.