1109: 80 Residue Symmetric Dimer Design: HBNet

Closed since over 10 years ago

Summary

• Created: July 02, 2015
• Expires: July 10, 2015 at 23:00 UTC
• Max points: 100

Description

This puzzle combines the new HBNet filter with full-blown symmetric design. There are several other filters in effect; see the puzzle comments for 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. Beta Folders 100 pts. 13,733
• 2. Anthropic Dreams 79 pts. 13,562
• 3. Go Science 61 pts. 13,381
• 4. Contenders 47 pts. 13,340
• 5. L'Alliance Francophone 35 pts. 13,114
• 6. Gargleblasters 26 pts. 13,084
• 7. Void Crushers 19 pts. 13,058
• 8. HMT heritage 14 pts. 12,747
• 9. Deleted group pts. 12,737
• 10. Italiani Al Lavoro 7 pts. 11,699

Top soloists

• 1. LociOiling 100 pts. 13,724
• 2. caglar 98 pts. 13,702
• 3. MurloW 96 pts. 13,527
• 4. Bruno Kestemont 94 pts. 13,381
• 5. mirp 92 pts. 13,346
• 6. retiredmichael 90 pts. 13,304
• 7. gitwut 88 pts. 13,292
• 8. martin.szew 86 pts. 13,277
• 9. Galaxie 85 pts. 13,266
• 10. Deleted player pts. 13,163

Comments

[bkoep]

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

HBond Network: Rewards networks comprising at least three hydrogen bonds, with at least one hydrogen bond spanning the dimer interface.

Core Existence: Monomer: Ensures that at least 24 residues are buried in the core of the monomer unit.

Core Existence: Complex: Ensures that at least 54 residues are buried in the core of the entire complex (including the interface between monomer units).

Fragment Score: Scans for parts of your design that are unlikely to fold up naturally. Use Rebuild and Remix tools to fix these regions of your design!

[bkoep]

Some players have reported a scoring anomaly in similar puzzles; we think this problem will be less pronounced here, but please share with us if you encounter scoring problems when loading a solution!

[Mike Cassidy]

Question about 1109. All out H-Bond puzzles have been helices should this be all helices?

[bkoep]

All-helical designs are just fine in this puzzle.

Yet, as always, we encourage players to experiment and try new things! We always take a close look at designs that players Share with Scientists, and here we are especially excited to see what players can do with hydrogen bond networks!

[booboo9322]

I can't find out how to play the fold it game.

[Susume]

Some on my team are finding that HB nets in the interface push the monomers apart a little (compared with all hydrophobes in the interface) and this causes the loss of the complex core filter points. Because the complex core filter is so discontinuous (huge gain or loss of points all at once) and the HB net points are gained or lost a few at a time, it is hard or impossible to trade out just a few hydrophobes for polars and keep one's score up.

Do natural dimers have a mix of hydrophobes and polars in the interface? If so, maybe an adjustment to the complex core filter is needed. If not, such a mix may not be feasible.

[Susume]

If you keep hydrophobes in the middle of the interface and make HB nets around the edges, the nets still force the monomers apart a bit, causing voids to form in the interface.

[bkoep]

Yes, natural interfaces tend to have a mixture of hydrophobic and polar interactions.

To be clear, polar residues do contribute to the Core Existence filter. Though, I can see how H-bonding polar residues might have a tendency to push subunits apart from one another to open up the interface—especially if you're simply trying to modify a pre-formed, all-hydrophobic interface. We will consider adjusting the Complex Core Existence filter for future puzzles, thanks for the feedback!

[AryehK]

I reccomend Foldit Wiki for foldit advice
foldit.wikia.com/wiki/Foldit_Wiki