puzzle picture
1410: Extra Large Monomer Design: Larger Core
Status: Closed

Summary

Name: 1410: Extra Large Monomer Design: Larger Core
Status: Closed
Created: 07/28/2017
Points: 100
Expired: 08/04/2017 - 23:00
Difficulty: Intermediate
Description: This puzzle challenges players to design a single-chain protein with 95-120 residues. The Core Existence filter has been escalated so that 40% of residues need to be buried in the protein core. The starting structure has 95 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!
Categories: Design, Overall

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Comments

bkoep's picture
User offline. Last seen 2 days 12 hours 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 40% 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 95. Players may use up to 120 residues in total.

Ideal Loops: Penalizes loops that do not conform to preferred ABEGO patterns. Use Auto Structures to see which residues count as "loops."

Susume's picture
User offline. Last seen 4 hours 27 min ago. Offline
Joined: 10/02/2011
Less fun with 40% core

I don't know about other people, but the 40% core filter makes the puzzles much less fun for me. I spend most of the week failing to meet it, and then maybe get lucky in one of my end game scripts - or not.

bkoep's picture
User offline. Last seen 2 days 12 hours ago. Offline
Joined: 11/15/2012
Groups: None
Thanks for the feedback!

That's good to know!

We wanted to try out the more stringent threshold to see how it would affect player designs. However I think 40% is probably more stringent than necessary for good designs, so we can relax it in the future.

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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, Microsoft, Adobe, RosettaCommons