Closed

Note: This puzzle replaces the original Puzzle 2155, which was closed early due to a bug in cutpoint behavior. Players may load solutions from the original puzzle.

Note: Due to a bug in cutpoint behavior, this puzzle was closed early land reposted as Puzzle 2155b. Players may save solutions from this puzzle and load them into the reposted puzzle.

Design a small molecule which can bind to KLHDC2! We don't want you to modify the protein, but instead use the small molecule design tools to build new small molecules which fit into the KLHDC2 binding pocket.

This sandbox puzzle features a CD22 binder design by WBarme1234 in Puzzle 2141. When binding to target loops, look out for backbone polar atoms! This design makes the necessary H-bonds to avoid unsatisfied backbone BUNS. For more, check out Foldit Lab Report #33 on YouTube! This sandbox puzzle is non-competitive and will not award any points.

Design a symmetric protein tetramer, with 4 identical chains of 90 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. 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 adjustments at the interface where the monomer subunit interacts with symmetric copies.

Way back in 2014 we posted this same refinement puzzle and found that it was a bit too large to run in Foldit at the time, with a size of 201 residues.

Design a small molecule which can bind to KLHDC2! We don't want you to modify the protein, but instead use the small molecule design tools to build new small molecules which fit into the KLHDC2 binding pocket.

Design a protein that can bind to CD47! This puzzle has a reduced BUNS penalty so that players can focus on other Objectives--but don't forget about BUNS completely! 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. 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 AlphaFold prediction, you may need to make adjustments at the interface where the binder interacts with the target.

This is a throwback puzzle to the early days of Foldit. Ubiquitin is a well-known protein that helps to regulate the natural turnover of proteins in the cell, and this starting structure is a model of the protein 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.

Design a small molecule which can bind to KLHDC2! We don't want you to modify the protein, but instead use the small molecule design tools to build new small molecules which fit into the KLHDC2 binding pocket.