puzzle picture
1758: Symmetric Trimer Design: H-Bond Networks
Status: Closed

Summary

Name: 1758: Symmetric Trimer Design: H-Bond Networks
Status: Closed
Created: 11/11/2019
Points: 100
Expired: 11/18/2019 - 23:00
Difficulty: Intermediate
Description: H-bond Networks are back! The H-bond Network Objective encourages players to bury satisfied H-bond networks at the interface between symmetric chains. H-bond networks are a great way to introduce polar residues at the interface, but it's important that all of the bondable atoms make hydrogen bonds! In this puzzle, there are no limits on the Complex Core, but we've included the Complex Core objective so players can see which residues count as core in the H-bond Networks. There a few other objectives 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

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2Go Science21,09170
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5Beta Folders20,72419

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Comments

bkoep's picture
User offline. Last seen 1 hour 19 min ago. Offline
Joined: 11/15/2012
Groups: None
Objectives

Core Existence: Monomer (max +1600 +2100)
Ensures that at least 21 residues are buried in the core of the monomer unit.

Core: Complex (max +0)
Awards no bonuses or penalties. Click Show to see which residues count as "Core" for the H-bond Network objective.

H-bond Network: Rewards networks that comprise at least two H-bonds involving core residues. Networks must be at least 75% satisfied (i.e. 75% of all bondable atoms in a network must make a h-bond).

SS Design (max +500)
Penalizes all CYS residues. Penalizes GLY, ALA residues in sheets. Penalizes GLY, ALA, SER, THR in helices.

Ideal Loops (max +500)
Penalizes any loop region that does not match one of the Building Blocks in the Blueprint tool. Use "Auto Structures" to see which regions of your protein count as loops.

Joined: 12/07/2007
Groups: Contenders
Is the Core Existence:

Is the Core Existence: Monomer maximum correct? It looks like 2100 might be the max.

bkoep's picture
User offline. Last seen 1 hour 19 min ago. Offline
Joined: 11/15/2012
Groups: None
You're right!

This is corrected in the comment above. There was also an error in the SS Design Objective; SER and THR are tolerated in helices, since they are useful for H-bond networks.

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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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