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Puzzle
Expires: 09/08/14 23:00:00
Top Group: Go Science
Top Player: Bruno Kestemont
Top Score: 9,482
Categories: Overall, Prediction
This is a throwback puzzle to the early days of Foldit. This protein shuttles lipids between cell membranes in the rice plant. Players will receive a bonus for forming up to four disulfide bonds in this puzzle. We are revisiting old Foldit puzzles so we can see how useful the recent additions to the game have been. Players will NOT be able to load in any previous solutions for these puzzles.
Puzzle
Expires: 09/07/14 23:00:00
1 comment
Top Group: Beta Folders
Top Player: smilingone
Top Score: 11,433
Categories: Design, Overall
Due to CASP, it has been a while since we've posted an Alzheimer's disease puzzle. In this puzzle, we would like you to design a binder for the ABeta42 polypeptide that can bind to and stabilize the polypeptide in an alpha-helical conformation. You will get a bonus for forming up to three disulfide bonds.

The ABeta peptide is a fragment of a larger human protein called APP. APP is a membrane protein found on the surface of cells in the brain and other tissues. It has a hydrophobic segment that is inserted into the cell membrane, forming an alpha-helix. When APP is cleaved by proteases, a fragment consisting of part of the transmembrane domain and part of the extracellular domain results: the ABeta peptide. This peptide is quite hydrophobic and aggregation-prone. It also has considerable propensity to adopt beta-sheet rich structures, ultimately forming beta-rich amyloid aggregates. Either these aggregates, or some of the intermediates along the aggregation pathway, are neurotoxic and cause the massive neuronal death seen in Alzheimer's disease.

It is our hope that a protein that is able to bind to Abeta when it is in a soluble state (before it enters the aggregation cascade) could help to prevent aggregation, and ultimately be used as an Alzheimer's therapy. Keeping Abeta in its alpha-helical conformation should help to prevent it from converting to the beta-rich conformation that permits amyloid formation. In this puzzle, the starting structure has the transmembrane portion of the Abeta peptide in a helical conformation, and this is what we would like you to build a protein around. You can move this from the starting conformation, but try not to get too far from an alpha-helical conformation. Good luck, and as always, be sure to share your most interesting designs with the scientists, independent of your score!

Note: The Foldit server will be down for scheduled maintenance from 8:00-11:00 am PST on Wednesday, Sept. 3. Please plan accordingly!
Puzzle
Expires: 09/05/14 23:00:00
4 comments
Top Group: Anthropic Dreams
Top Player: Galaxie
Top Score: 12,409
Categories: Overall, Predicted Contacts, Prediction
This contact map puzzle is based on the same CASP11 target as Puzzle 965, and we want to see if you can improve a model from one of the competing servers. Instead of starting this puzzle with an extended chain, we've provided a model that satisfies a large number of contacts, but has some severe problems. Contacts are scored with the Contact Map filter in this puzzle, and there is an upper limit of 2775 possible points from the filter. Players will NOT be able to load solutions from Puzzle 965.
Puzzle
Expires: 10/09/14 23:00:00
2 comments
Top Group: Anthropic Dreams
Top Player: superbro
Top Score: 8,800
Categories: Beginner
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.
Puzzle
Expires: 09/03/14 07:00:00
4 comments
Top Group: Void Crushers
Top Player: Timo van der Laan
Top Score: 11,415
Categories: Design, Overall
Based on player feedback, we are posting a second anti-Ebola peptide design puzzle, this time with a slightly longer peptide. We would like you to design a small (30-residue) peptide that can bind to and block the Ebola glycoprotein. The glycoprotein is a viral surface protein that allows the Ebola virus to enter human cells. A small peptide inhibitor of this protein would therefore represent a candidate therapeutic for treating this deadly disease. We are starting you with a hotspot "stub" that was the top-scoring result from the earlier stub-finding puzzle, number 846 (congratulations to AnthropicDreams). We have extended this stub with twenty-seven additional residues that you can design.
Puzzle
Expires: 10/02/14 23:00:00
Top Group: Void Crushers
Top Player: FHRITP
Top Score: 11,150
Categories: Beginner
This is a small symmetric trimer design puzzle. A symmetric protein relies not only on how well folded each part is, but also on how well they interface together. Your changes will be reflected in the symmetric unit. Make sure you have completed Intro Puzzle 5-2, and 7-1 through 7-4. For players with fewer than 150 global points.
Puzzle
Expires: 09/25/14 23:00:00
Top Group: Anthropic Dreams
Top Player: qrana
Top Score: 9,260
Categories: Beginner
We are giving you a helix positioned over a hydrophobic groove where binding occurs in nature. You can mutate any residue on the helix but none on the native binding region. Try to look for favorable hydrophobic interactions in this groove while maintaining the helix. For players with fewer than 150 global points.
Puzzle
Expires: 09/18/14 23:00:00
Top Group: Italiani Al Lavoro
Top Player: AdidasPete
Top Score: 15,400
Categories: Beginner
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.
Puzzle
Expires: 09/11/14 23:00:00
Top Group: Anthropic Dreams
Top Player: Ginkai
Top Score: 9,298
Categories: Beginner
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.
Puzzle
Expires: 09/04/14 23:00:00
Top Group: Anthropic Dreams
Top Player: KFraser
Top Score: 8,727
Categories: Beginner
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.
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