Placeholder image of a protein
Icon representing a puzzle

1909: Symmetric Tetramer Design: H-bond Networks

Closed since over 5 years ago

Intermediate Overall Design Symmetry

Summary

Created
October 27, 2020
Expires
Max points
100
Description

Design a symmetric protein tetramer, with 4 identical chains that assemble together! The H-bond Network Objective encourages players to build buried, 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! We've also adjusted the H-bond Network Objective so that poor-scoring H-bonds may not contribute to networks; poor-scoring H-bonds will be displayed in red. This puzzle uses the Buried Unsats Objective, with a large penalty for buried polar atoms that can't make H-bonds. In this puzzle, there are no limits on the Complex Core, but we've included the Complex Core objective so players can see the core residues that can be incorporated into H-bond Networks.

Top groups

  1. Avatar for Contenders
    1. Contenders
    100 pts. 21,650
  2. Avatar for Go Science 2. Go Science 74 pts. 21,602
  3. Avatar for Gargleblasters 3. Gargleblasters 54 pts. 21,398
  4. Avatar for Anthropic Dreams 4. Anthropic Dreams 38 pts. 20,059
  5. Avatar for Beta Folders 5. Beta Folders 27 pts. 19,775
  6. Avatar for Void Crushers 6. Void Crushers 18 pts. 18,954
  7. Avatar for BOINC@Poland 7. BOINC@Poland 12 pts. 18,861
  8. Avatar for Marvin's bunch 8. Marvin's bunch 8 pts. 18,550
  9. Avatar for Hold My Beer 9. Hold My Beer 5 pts. 18,172
  10. Avatar for L'Alliance Francophone 10. L'Alliance Francophone 3 pts. 17,692
  1. Avatar for CharlieFortsConscience
    1. CharlieFortsConscience Lv 1
    100 pts. 21,650
  2. Avatar for ZeroLeak7 2. ZeroLeak7 Lv 1 96 pts. 21,602
  3. Avatar for Enzyme 3. Enzyme Lv 1 92 pts. 21,322
  4. Avatar for cbwest 4. cbwest Lv 1 88 pts. 21,214
  5. Avatar for dcrwheeler 5. dcrwheeler Lv 1 84 pts. 20,810
  6. Avatar for spvincent 6. spvincent Lv 1 81 pts. 20,761
  7. Avatar for Joanna_H 7. Joanna_H Lv 1 77 pts. 20,546
  8. Avatar for malphis 8. malphis Lv 1 74 pts. 20,545
  9. Avatar for Skippysk8s 9. Skippysk8s Lv 1 70 pts. 20,495
  10. Avatar for silent gene 10. silent gene Lv 1 67 pts. 20,416

Comments

bkoep Staff Lv 1

Buried Unsats (max +500)
Penalizes polar atoms that cannot make hydrogen bonds, -200 points per atom (not including symmetric copies).

Core Existence: Monomer (max +2200)
Ensures that at least 22 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 (max +1800)
Rewards networks that comprise at least 2 H-bonds involving core residues.
Between 1 and 9 H-bonds should cross the interface between symmetric units.
Networks must be at least 75% satisfied (i.e. 75% of all bondable atoms in a network must make a H-bond).

Interaction Energy (max +500) Monitors that all large PHE, TYR, and TRP residues are scoring well.

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