puzzle picture
1570: Symmetric Trimer Design: Hydrogen Bond Networks
Status: Closed

Summary

Name: 1570: Symmetric Trimer Design: Hydrogen Bond Networks
Status: Closed
Created: 09/03/2018
Points: 100
Expired: 09/10/2018 - 23:00
Difficulty: Advanced
Description: This symmetric design puzzle has C3 symmetry, with three symmetric chains. The H-bond Network Filter encourages players to bury satisfied H-bond networks at the interface between the three chains. We've doubled the H-bond network bonus, but we'd like players to focus on building networks deep in the core of the protein complex. There a couple 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!
Categories: Design, Overall, Symmetry

Top Groups

RankGroupScorePoints
1Go Science22,833100
2Anthropic Dreams22,38765
3Contenders22,20941
4Beta Folders21,87024
5Gargleblasters21,74914

Top Evolvers

Top Soloists

RankPlayerGroupScorePoints
1johnmitch 78 7  22,619100
2tyler0911 32 13 Anthropic Dreams22,29496
3isaksson 13 19 Go Science22,22793
4Bletchley Park 24 17 Contenders22,20989
5hpaege 78 26  22,20585


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Comments

bkoep's picture
User offline. Last seen 15 hours 59 min ago. Offline
Joined: 11/15/2012
Groups: None
Objectives

Core Existence: Monomer: Ensures that at least 21 residues are buried in the core of the monomer unit.

Core Existence: Complex: Ensures that at least 72 residues are buried in the core of the entire complex (including the interface between monomer units). The threshold of "buriedness" between core and surface residues is more stringent than usual, so residues may have to be "extra buried" to be counted toward the core of the protein complex.

HBond Network: Rewards networks that comprise at least three hydrogen bonds involving core residues. Networks must be at least 75% satisfied (i.e. 75% of all polar atoms in a network must make a hydrogen bond).

SS Design: Prohibits all CYS residues. Prohibits GLY, ALA residues in sheets and helices.

Joined: 05/19/2009
Groups: Contenders
Please optimize the performance of this current client

It takes a solid 14 seconds to roll a helix, something that should be an instantaneous job. Other actions like freezing do not work as the system is too unresponsive. I have a current generation system.

Joined: 09/24/2012
Groups: Go Science
indeeed

For freeezing, I use the following recipe:
https://fold.it/portal/recipe/102617

S0ckrates's picture
User offline. Last seen 1 day 10 hours ago. Offline
Joined: 05/19/2017
Groups: None
Seconded.

I did this on my stream today, I just got too tired of waiting 3 seconds every time I chucked a building block into my monomer using Blueprint mode. I'm running an i7-7700K (4.20 GHz) with an SSD and graphics card setup, too. I just didn't have it in me to even finish a monomer.

Joined: 06/24/2008
Groups: Void Crushers
Very slow

It is a strangely slow puzzle; very hard to work on.

Joined: 06/24/2008
Groups: Void Crushers
Also

It would be good if we knew the max score on the filter.

LociOiling's picture
User offline. Last seen 9 hours 8 min ago. Offline
Joined: 12/27/2012
Groups: Beta Folders
filter maxima

The max total filter bonus is +8070, broken down as:

Core Existence Monomer: +2260 max

Core Existence Complex: +3760 max

SS Design: +500 max

Hydrogen Bond Network: +1600 max

The h-bond bonus is 200 points per interface h-bond, up to a maximum of 8.

Thanks to reefyrob for sharing a solution with max bonus, makes determining this info pretty easy. He has 10 bonds in one network, but only six are interface bonds. The network bonds to one sidechain, then continues through a backbone oxygen atom to another sidechain.

Joined: 09/24/2012
Groups: Go Science
Adding some more days?

Extremely slow and heavy: could you give us some more time ?

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Developed by: UW Center for Game Science, UW Institute for Protein Design, Northeastern University, Vanderbilt University Meiler Lab, UC Davis
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