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Expired: 12/07/17 23:00:00
In electron density puzzles, we give you some experimental data to help you find the correct fold. This data takes the form of an electron density, and appears in game as a guide. You can adjust the guide visualization by going to [Actions]>[Electron Density]. For players with fewer than 150 global points.
Expired: 11/01/17 23:00:00
How enzymes catalyze reactions is still an ongoing debate in the biochemistry literature. Some people think it's most important that the active site provides the right chemical environment, others that the geometry be perfected, and others that think that the motions of the protein are most important. This puzzle is meant to allow you to try and design the active site to make the best possible enzyme. One way to improve an enzyme's activity is by binding the transition state of the reaction tighter. In this puzzle, we've put a transition-state analog into the active site, and would like you to try and improve the binding to that analog by redesigning the active site residues!
Expired: 10/27/17 18:00:00
This small protein interferes with cellular adhesion and, consequently, clotting mechanisms. In this experimental puzzle you will have 250 moves at your disposal. Once you use them up, you can reset and try something else!
Expired: 11/30/17 23:00:00
We are giving you this Parabacteroides Distasonis protein as an extended chain. The native is shown as a guide on this puzzle, so try using everything you have learned in the Intro levels to match the native fold. Hints and details are posted in the puzzle comments. For players with fewer than 150 global points.
Expired: 10/24/17 23:00:00
The neuropeptide Y receptors are a group of human cell surface receptors found in the brain and digestive system, and are involved in regulating hunger and satiety. A better understanding of the neuropeptide Y receptors could allow scientists to better understand the diseases and disorders which involve misregulation of hunger and satiety. Treatment of obesity is the obvious example, but there are other disorders characterized by a mis-regulation of hunger (such as Prader-Willi syndrome). Chemotherapy is often associated with appetite suppression, so a treatment which can increase hunger could help reduce the dangerous weight loss sometimes seen in chemotherapy patients.
Expired: 10/31/17 23:00:00
Aflatoxins are a class of poisonous compounds that contaminate a significant portion of the global food supply. In this puzzle, players are challenged to redesign an enzyme that could break down aflatoxin molecules. The majority of the protein is frozen, with the aflatoxin ligand fixed in a binding pocket. Surrounding the binding pocket are a number of loops that might be redesigned without affecting the folding stability of the protein. In these loops, players may manipulate the protein backbone and mutate the residue sidechains. Redesign the loops of this protein to better bind the aflatoxin ligand!
Expired: 11/23/17 23:00:00
We are giving you this currently unsolved short protein as an extended chain. It has only 48 residues and we're posting it with no secondary structure predictions. For players with fewer than 150 global points.
Expired: 10/17/17 23:00:00
How chaperones help proteins to fold is still a matter of great debate in the scientific literature. This Classroom puzzle will help students explore different possible ways that a chaperone can interact with its client proteins. The puzzle includes a frozen chaperone protein—a miniaturized version of GroEL that can perform some of the functions of the full GroEL chaperone. The folding client is barnase, an well-behaved bacterial protein that is a popular model in protein folding studies. Players can choose to start with barnase in either the folded or unfolded state. To switch between the folded and unfolded starts, reset the puzzle (see the Actions menu in Original Interface; or the Undo menu in Selection Interface). It will be up to you to determine what provides the optimal balance between folding and interaction with the chaperone!
Expired: 10/13/17 23:00:00
This puzzle challenges players to design a single-chain protein with 65-75 residues. We've softened the penalties associated with the Core Existence filter, which have typically been very steep. The starting structure has 65 residues, but more can be added at a cost of 16 points per residue. See the puzzle comments for filter details. The Baker Lab will run folding predictions on your solutions for this puzzle, and those that perform well will be synthesized in the lab. Remember, you can use the Upload for Scientists button for up to 5 designs that you want us to look at, even if they are not the best-scoring solutions!
Expired: 11/16/17 23:00:00
This small unsolved Arabidopsis protein only has 59 residues and negatively controls the biosynthesis of starch in plants and regulates leaf and seed composition. We are giving you 5 starts for this puzzle. Resetting the puzzle will cycle through these 5 Zhang server predictions. They are also in the Alignment Tool so you can use partial threading as well as an extended chain. For players with fewer than 150 global points.