2195: Monkeypox H3 Binder Design: Round 3
Foldit | Solve Puzzles for Science
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1y ago
Note: This puzzle closes two days early, on September 7, due to a scheduled Foldit update. Design a protein that can bind to the monkeypox H3 target! AlphaFold predictions are available for your designed binder. Once you've designed a binder for the target, upload your solution for AlphaFold using the [AlphaFold prediction tool](https://fold.it/portal/node/2011929). AlphaFold will predict the structure of your binder chain only (i.e. in the unbound state, in the absence of the target). If you load this prediction, then Foldit will attempt to align the prediction with your solution (i.e. in the ..read more
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Beginner Puzzle (less than150): Parabacteroides Distasonis
Foldit | Solve Puzzles for Science
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1y ago
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. START HERE: If you are new to Foldit, here are detailed instructions to get you started: http://fold.it/portal/node/988864 HINT: If you are having trouble with this puzzle, try using the "Align Guide" tool: By right clicking on a region of the protein (not the guide) it will pull up a ..read more
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2194: Revisiting Puzzle 148: Rosetta Decoy 11
Foldit | Solve Puzzles for Science
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1y ago
Note: This puzzle closes a day early, on September 7, due to a scheduled Foldit update. This is a throwback puzzle to the early days of Foldit. This small protein is a component of the major histocompatibility complex (MHC) which is essential to a functioning immune system. The starting structure is a Rosetta model. This protein contains two cysteine residues that are oxidized to form one disulfide bond. We are revisiting old Foldit puzzles so we can see how useful the recent additions to the game have been and to provide newer players with problems that are still scientifically relevant. Sequ ..read more
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Design of the Month: September 2022
Foldit | Solve Puzzles for Science
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1y ago
This sandbox puzzle features a strand binder design by [Bruno Kestemont](https://fold.it/portal/user/447652) and [ichwilldiesennamen](https://fold.it/portal/user/962159) from [Puzzle 2187](https://fold.it/portal/node/2013430). This design boasts a 100% satisfied H-bond network that should make our binder very specific and keep it from sticking to off-target strands. For more, check out [Foldit Lab Report #36](https://youtu.be/QnQHS_iDTdo) on YouTube! This sandbox puzzle is non-competitive and will not award any points ..read more
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2193: Symmetric Pentamer Design with AlphaFold Predictions
Foldit | Solve Puzzles for Science
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1y ago
Design a symmetric protein pentamer, with 5 identical chains of 80 residues each! This puzzle enables AlphaFold predictions for the monomer subunit of your design, so you can upload your solution for AlphaFold using the [AlphaFold prediction tool](https://fold.it/portal/node/2011929). AlphaFold will predict the structure of your monomer subunit only (i.e. in the unbound state, in the absence of other symmetric copies). If you load this prediction, then Foldit will attempt to align the prediction with your solution. If you continue working off of the AlphaFold prediction, you may need to make a ..read more
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2192: Monkeypox H3 Binder Design: Round 2
Foldit | Solve Puzzles for Science
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1y ago
Design a protein that can bind to the monkeypox H3 protein! AlphaFold predictions are available for your designed binder. Once you've designed a binder for the target, upload your solution for AlphaFold using the [AlphaFold prediction tool](https://fold.it/portal/node/2011929). AlphaFold will predict the structure of your binder chain only (i.e. in the unbound state, in the absence of the target). If you load this prediction, then Foldit will attempt to align the prediction with your solution (i.e. in the bound state, making an interface with the target). If you continue working off of the Alp ..read more
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2191: Electron Density Reconstruction 12
Foldit | Solve Puzzles for Science
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1y ago
The structure of this protein has already been solved and published, but close inspection suggests that there are some problems with the published solution. We'd like to see if Foldit players can use the same electron density data to reconstruct a better model. Sequence: LSLMPWFHGKISGQEAVQQLQPPEDGLFLVRESARHPGDYVLCVSFGRDVIHYRVLHRDGHLTIDAVFFCNLMDMVEHYSKDKGAICTKLVRPKRK ..read more
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2190: Two-sided Strand Binder Design: Round 4
Foldit | Solve Puzzles for Science
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1y ago
Design a beta strand and a separate protein that can bind to it! This puzzle is even bigger with 110 residues, and has an H-bond Network Objective, to reward sidechain H-bonds between the binder and strand target. For maximum effect, the H-bond network should be buried away from solvent. A Secondary Structure Objective will penalize designs with >50% helices. We think it will be important to design a binder that forms a strong beta sheet around the target strand. This is a two-sided design problem, where we can design the sequence of both binding partners. The goal is to design a pair of pr ..read more
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2189: Monkeypox H3 Binder Design: Round 1
Foldit | Solve Puzzles for Science
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1y ago
Design a protein that can bind to the monkeypox H3 protein! AlphaFold predictions are available for your designed binder. Once you've designed a binder for the target, upload your solution for AlphaFold using the [AlphaFold prediction tool](https://fold.it/portal/node/2011929). AlphaFold will predict the structure of your binder chain only (i.e. in the unbound state, in the absence of the target). If you load this prediction, then Foldit will attempt to align the prediction with your solution (i.e. in the bound state, making an interface with the target). If you continue working off of the Alp ..read more
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2188: Revisiting Puzzle 147: Rosetta Decoy 10
Foldit | Solve Puzzles for Science
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1y ago
This is a throwback puzzle to the early days of Foldit. This protein is part of a signaling pathway that regulates sporulation in B. subtilis; the starting structure is a model produced by Rosetta. We are revisiting old Foldit puzzles so we can see how useful the recent additions to the game have been and to provide newer players with puzzles that are still scientifically relevant. Sequence: NEKILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTKERPDLVLLDMKIPGMDGIEILKRMKVIDENIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIRDAVKKYLPL ..read more
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