Foldit Puzzles

2195: Monkeypox H3 Binder Design: Round 3

Note: This puzzle closes two days early, on September 7, due to a scheduled Foldit update.

2192: Monkeypox H3 Binder Design: Round 2

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. 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.

2191: Electron Density Reconstruction 12

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.

Design of the Month: August 2022

This sandbox puzzle features a CD47 binder design by LociOiling and MrZanav from Puzzle 2172. This design packs tightly against the target binding site, and has great binder metrics. For more, check out Foldit Lab Report #35 on YouTube! This sandbox puzzle is non-competitive and will not award any points.

2190: Two-sided Strand Binder Design: Round 4

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.

2189: Monkeypox H3 Binder Design: Round 1

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. 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.

2188: Revisiting Puzzle 147: Rosetta Decoy 10

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.

2187: Two-Sided Strand Binder Design: Round 3

Design a beta strand and a separate protein that can bind to it! This puzzle has added 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. Similar to Round 2, 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.

2186: CD47 Binder Design: Round 13

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.

2185: Revisiting Puzzle 146: Rosetta Decoy 9

This is a throwback puzzle to the early days of Foldit. This protein is a phosphatase that participates in several metabolic pathways; 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 problems that are scientifically relevant.