Placeholder image of a protein
Icon representing a puzzle

1867: Symmetric Trimer Design: Limited Interface

Closed since over 5 years ago

Intermediate Overall Design Symmetry

Summary

Created
July 22, 2020
Expires
Max points
100
Description

Design a symmetric protein trimer, with 3 identical chains that assemble together! This puzzle has no H-Bond Network objective, but there is "Core Limit: Complex" objective meant to limit the size of the interface between symmetric chains. An interface that is too large, with too many orange hydrophobics, can prevent the individual subunits from folding properly. The "Core Limit: Complex" objective will incur penalties if there are too many buried residues in the total assembly. This puzzle uses the Buried Unsats Objective, with a large penalty for buried polar atoms that can't make H-bonds. See the puzzle comments for more Objective details.

Top groups

  1. Avatar for Australia 11. Australia 1 pt. 15,998
  2. Avatar for Russian team 12. Russian team 1 pt. 15,756
  3. Avatar for Italiani Al Lavoro 13. Italiani Al Lavoro 1 pt. 11,460
  4. Avatar for Mojo Risin' 14. Mojo Risin' 1 pt. 0
  5. Avatar for Team Canada 15. Team Canada 1 pt. 0
  1. Avatar for aznarog 81. aznarog Lv 1 2 pts. 16,218
  2. Avatar for Evica 82. Evica Lv 1 2 pts. 16,162
  3. Avatar for Jakki 83. Jakki Lv 1 2 pts. 16,064
  4. Avatar for tracybutt 84. tracybutt Lv 1 2 pts. 15,998
  5. Avatar for MrZanav 85. MrZanav Lv 1 2 pts. 15,848
  6. Avatar for kyoota 86. kyoota Lv 1 2 pts. 15,756
  7. Avatar for CAN1958 87. CAN1958 Lv 1 2 pts. 15,679
  8. Avatar for ester141 88. ester141 Lv 1 1 pt. 15,437
  9. Avatar for nspc 89. nspc Lv 1 1 pt. 15,375
  10. Avatar for essemiyagi 90. essemiyagi Lv 1 1 pt. 15,166

Comments

bkoep Staff Lv 1

Buried Unsats (max +500)
Penalizes polar atoms that cannot make hydrogen bonds, -150 points per atom (not including symmetric copies).

Core Existence: Monomer (max +2000)
Ensures that at least 30 residues are buried in the core of the monomer unit.

Core Limit: Complex (max +500)
Checks that no more than 102 residues are buried in the symmetric complex, including the interface between monomer units.

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