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1608: Symmetric Dimer Design: Hydrogen Bond Networks

Closed since over 7 years ago

Advanced Overall Design Symmetry

Summary

Created
December 07, 2018
Expires
Max points
100
Description

This symmetric design puzzle has C2 symmetry, with two symmetric chains. The H-bond Network Bonus encourages players to bury H-bond networks at the interface between the two chains. We've doubled the H-bond network bonus, but we'd like players to focus on building networks deep in the core of the protein complex. There are a couple other bonuses in effect; see the puzzle comments for details. The Baker Lab will run folding predictions on your solutions for this puzzle, and those that perform well will be synthesized in the lab. Remember, you can use the Upload for Scientists button for up to 5 designs that you want us to look at, even if they are not the best-scoring solutions!

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  1. Avatar for spmm 111. spmm Lv 1 1 pt. 0
  2. Avatar for Phyx 112. Phyx Lv 1 1 pt. 0
  3. Avatar for nodnerb93 113. nodnerb93 Lv 1 1 pt. 0
  4. Avatar for dpmattingly 114. dpmattingly Lv 1 1 pt. 0
  5. Avatar for Idiotboy 115. Idiotboy Lv 1 1 pt. 0
  6. Avatar for fisherlr777 116. fisherlr777 Lv 1 1 pt. 0
  7. Avatar for MAP-Kinase-Kinase-Kinase 117. MAP-Kinase-Kinase-Kinase Lv 1 1 pt. 0
  8. Avatar for Grom 118. Grom Lv 1 1 pt. 0
  9. Avatar for SarnikSBiol1300 119. SarnikSBiol1300 Lv 1 1 pt. 0

Comments

bkoep Staff Lv 1

Core Existence: Monomer (max +1900)
Ensures that at least 19 residues are buried in the core of the monomer unit. The threshold of "buriedness" between core and surface residues is more stringent than usual, so residues may have to be "extra buried" to be counted toward the core.

Core Existence: Complex (max +2100)
Ensures that at least 42 residues are buried in the core of the entire complex (including the interface between monomer units).

HBond Network
Rewards networks that comprise at least three hydrogen bonds involving core residues. Networks must be at least 70% satisfied (i.e. 70% of all oxygens and polar hydrogens in a network must make a hydrogen bond).

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

dbuske Lv 1

I cannot find the 2nd chain, then I lost the 1st chain.
Q does not work to find the 1st chain.