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1046: Player-Solution Strand Redesign
Status: Closed


Name: 1046: Player-Solution Strand Redesign
Status: Closed
Created: 02/03/2015
Points: 100
Expired: 02/09/2015 - 20:00
Difficulty: Intermediate
Description: This is a puzzle where you can redesign part of a player-designed protein. This is a monomer designed by viosca for Puzzle 1024: 75 Residue Monomer Design: Zero Cysteines. Our analysis shows that most of this protein is likely to fold, but that the first strand and loop can adopt some alternative conformations. Help us redesign this region of the protein to lock down the position of the first strand! Players may make mutations only at certain positions that contact the first strand. Players may also insert two additional residues in this region, but beware that changing the shape of the protein too much will disqualify your design!
Categories: Design, Overall

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bkoep's picture
User offline. Last seen 20 hours 35 sec ago. Offline
Joined: 11/15/2012
Groups: Foldit Staff

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.

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!

Secondary Structure Design: Penalizes all CYS residues. Penalizes GLY, ALA, and PRO residues in helices and sheets. Also penalizes hydrophilic residues in the core and hydrophobic residues on the surface.

Exploration: Designs that deviate from the starting structure with RMSD > 2.0Å are invalid.

Joined: 09/21/2011
Groups: Void Crushers
Tip for players losing exploration filter

Try to move the protein as a whole to match the starting structure. The filter is space based, not a real RMSD.

brow42's picture
User offline. Last seen 2 years 2 weeks ago. Offline
Joined: 09/19/2011
Groups: None
Exploration Filter

First thing I did was shift the first helix 1 segment. This alone brought me up to 1.90 exploration. I think the loop on one end is too short. But if I can't shift it, I don't have much room to move.

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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, Boehringer Ingelheim, RosettaCommons