1488: Small Monomer Design

Closed since about 8 years ago

Summary

• Created: February 23, 2018
• Expires: March 02, 2018 at 23:00 UTC
• Max points: 100

Description

This puzzle challenges players to design a single-chain protein with 65-75 residues. The starting structure has 65 residues, but more can be added at a cost of 23 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!

Top groups

• 1. Gargleblasters 100 pts. 10,143
• 2. Beta Folders 68 pts. 10,113
• 3. Anthropic Dreams 44 pts. 10,078
• 4. Go Science 27 pts. 10,058
• 5. Contenders 16 pts. 10,032
• 6. Void Crushers 9 pts. 9,927
• 7. L'Alliance Francophone 5 pts. 9,786
• 8. freefolder 3 pts. 8,434
• 9. FoldIt@Netherlands 1 pt. 8,088
• 10. Trinity Biology 1 pt. 7,512

Top evolvers

• 1. ManVsYard 100 pts. 10,126
• 2. Fat Tony 78 pts. 10,117
• 3. Sissue 60 pts. 10,116
• 4. Skippysk8s 45 pts. 10,116
• 5. smilingone 33 pts. 10,113
• 6. LociOiling 24 pts. 10,109
• 7. reefyrob 17 pts. 10,093
• 8. retiredmichael 12 pts. 10,089
• 9. Galaxie 8 pts. 10,078
• 10. Deleted player pts. 10,074

Comments

[bkoep]

Residue IE Score: Monitors that all PHE, TYR, and TRP residues are scoring well.

Core Existence: Ensures that at least 30% of the residues are buried in the core of your design.

Secondary Structure: Checks that no more than 50% of residues are in helices; penalties are incurred if more than 50% of residues form helices.

Secondary Structure Design: Penalizes all CYS residues. Penalizes GLY, ALA residues in sheets; penalizes GLY, ALA, SER, THR in helices.

Residue Count: Penalizes extra residues inserted beyond the starting 65. Players may use up to 75 residues in total.

[dbuske]

I think it is about time you set the core existence to a more reasonable and achievable amount.

[Susume]

I agree a more lenient core filter would help players a lot. There are already sidechains that are in the interior, that the mutate function consistently makes orange, but the core filter colors green and does not give credit for. If we could get credit for those being in the core, you could keep the required ratio of core residues the same but we would have an easier time meeting the filter.

Currently I end up using bands to pull the core closer together to force those sidechains to get counted as core, but those bands are presumably making the protein less realistic in other ways (because they are partially thwarting the score function). If the core filter were as smart (or as lenient) as the mutate function, I could leave the bands off and have a more realistic whole.