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 johnmitch 31. johnmitch Lv 1 32 pts. 19,549
  2. Avatar for Czim 32. Czim Lv 1 30 pts. 19,524
  3. Avatar for nicobul 33. nicobul Lv 1 29 pts. 19,494
  4. Avatar for Bautho 34. Bautho Lv 1 28 pts. 19,472
  5. Avatar for OWM3 35. OWM3 Lv 1 27 pts. 19,469
  6. Avatar for abiogenesis 36. abiogenesis Lv 1 25 pts. 19,436
  7. Avatar for malphis 37. malphis Lv 1 24 pts. 19,403
  8. Avatar for stomjoh 38. stomjoh Lv 1 23 pts. 19,370
  9. Avatar for GuR0 39. GuR0 Lv 1 22 pts. 19,316
  10. Avatar for fpc 40. fpc Lv 1 21 pts. 19,289

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.