1046: Player-Solution Strand Redesign

Closed since about 11 years ago

Summary

• Created: February 04, 2015
• Expires: February 09, 2015 at 20:00 UTC
• Max points: 100

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!

Top groups

• 21. Waverki 1 pt. 9,766
• 22. DSN @ Home 1 pt. 9,766
• 23. Crunching Family 1 pt. 9,766
• 24. freefolder 1 pt. 9,766
• 25. It's over 9000! 1 pt. 9,766
• 26. Kohli Honors Bio Spring 2015 1 pt. 9,766
• 27. StructuralBiology-CHEM490 1 pt. 9,766
• 28. Cell Biology Spring 2015 with Smith 1 pt. 9,766
• 29. SETI.Germany 1 pt. 9,766
• 30. Deleted group pts. 9,766

Top soloists

• 1. MurloW 100 pts. 9,859
• 2. mirp 99 pts. 9,850
• 3. BitSpawn 97 pts. 9,842
• 4. Timo van der Laan 95 pts. 9,841
• 5. pauldunn 93 pts. 9,839
• 6. christioanchauvin 91 pts. 9,836
• 7. Bruno Kestemont 90 pts. 9,825
• 8. nicobul 88 pts. 9,823
• 9. cbwest 86 pts. 9,820
• 10. Galaxie 85 pts. 9,820

Comments

[bkoep]

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.

[Timo van der Laan]

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

[brow42]

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.