puzzle picture
1214: 65 Residue Monomer Design: Residue Count Filter
Status: Closed

Summary

Name: 1214: 65 Residue Monomer Design: Residue Count Filter
Status: Closed
Created: 03/31/2016
Points: 100
Expired: 04/07/2016 - 23:00
Difficulty: Intermediate
Description: This design puzzle features a new filter: the Residue Count filter incurs a penalty when a player inserts extra residues beyond the 65 residue limit. The filter is intended to give players the flexibility to temporarily add residues to a design-in-progress. 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!

Note: If you have experienced slow performance in recent design puzzles, please try the companion devprev puzzle with disabled Rama Map.
Categories: Design, Overall

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Comments

bkoep's picture
User offline. Last seen 55 min 20 sec ago. Offline
Joined: 11/15/2012
Groups: None
Filters

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, and PRO residues in helices and sheets.

Residue Count: Penalizes extra residues inserted beyond the 65 residue limit. Players may insert up to 10 extra residues.

gitwut's picture
User offline. Last seen 41 weeks 5 days ago. Offline
Joined: 05/18/2012
Groups: Contenders
Temporary residues?

The filter is intended to give players the flexibility to temporarily add residues to a design-in-progress.

How would temporarily adding residues be beneficial? Just curious.

Joined: 06/06/2013
Groups: Gargleblasters
temp residue

make what was a sheet into a helix, switch another helix to sheet. can add to one, subtract from other without redoing whole fold. good for those of us with poor layout skills :D

Joined: 09/21/2011
Groups: Void Crushers
Performance Rama

Compared performance on several recipes.
The performance penalty varies between 10 and 20 percent.
I can not find real difference between the different tools wiggle, shake, mutate and rebuild, it looks like all tools are somehow effected.

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Developed by: UW Center for Game Science, UW Institute for Protein Design, Northeastern University, Vanderbilt University Meiler Lab, UC Davis
Supported by: DARPA, NSF, NIH, HHMI, Amazon, Microsoft, Adobe, RosettaCommons