Placeholder image of a protein
Icon representing a puzzle

884: 74 Residue Ebola Binder Design

Closed since almost 12 years ago

Intermediate Overall Design

Summary

Created
May 01, 2014
Expires
Max points
100
Description

This is a design puzzle similar to Puzzle 879—now with 74 residues—near the interface of a target glycoprotein from the Ebola virus. At the binding site of the Ebola protein, there is already a helix designed by scientists in the Baker Lab, but the helix will not fold up by itself! Build a scaffold around the starting design that will fold up properly and stabilize the binding helix! There are strong constraints to keep the binding helix in place, and you may not mutate residues at the interface. You may not add additional residues to the design, but you may delete residues from one end of the design and reinsert them at the other end. This puzzle includes a Residue IE Score filter and a Core Existence filter, and High Wiggle Power has been disabled. Remember to share your favorite designs using the Share with Scientist tool, even if those are not your best-scoring solutions!

Top groups

  1. Avatar for Beta Folders
    1. Beta Folders
    100 pts. 1,865
  2. Avatar for Anthropic Dreams 2. Anthropic Dreams 74 pts. 1,808
  3. Avatar for Deleted group 3. Deleted group pts. 1,707
  4. Avatar for Void Crushers 4. Void Crushers 38 pts. 1,449
  5. Avatar for L'Alliance Francophone 5. L'Alliance Francophone 27 pts. 1,314
  6. Avatar for Russian team 6. Russian team 18 pts. 1,195
  7. Avatar for Contenders 7. Contenders 12 pts. 1,144
  8. Avatar for Deleted group 8. Deleted group pts. 1,012
  9. Avatar for Repro-men 9. Repro-men 5 pts. 843
  10. Avatar for Deleted group 10. Deleted group pts. 824
  1. Avatar for Idiotboy 111. Idiotboy Lv 1 1 pt. 0
  2. Avatar for yoyo washington 112. yoyo washington Lv 1 1 pt. 0
  3. Avatar for BackupElk 113. BackupElk Lv 1 1 pt. 0
  4. Avatar for Flagg65a 114. Flagg65a Lv 1 1 pt. 0
  5. Avatar for jdormaar 115. jdormaar Lv 1 1 pt. 0
  6. Avatar for NickySea 116. NickySea Lv 1 1 pt. 0
  7. Avatar for packer 117. packer Lv 1 1 pt. 0
  8. Avatar for stomjoh 118. stomjoh Lv 1 1 pt. 0

Comments

wisky Lv 1

Core exists filter appears to be taking into account residues from the ebola protein. The highest I was able to get it to with my current design was -480.

spmm Lv 1

The 104 - 106 segments - do we need to keep away from them because there is actually something there?

Seg 1 - serine - is that going to be connected to something else so needs room to do that?
thanks

Timo van der Laan Lv 1

  1. The ebola part of the score is so negative that normal scoring and seeing how far pointswise you are on the scoring ladder is not possible as long as the total score is negative.
    This should be corrected.
  2. The filters should only work on the design part of the puzzle, not on the Ebola part. (would probably also speed up the puzzle).
  3. As a consequence of 1 scripts that cant cope with negative scores or change behavior depending on the score don't work correctly.
    (TIP for my DRW users: use More options and disable skip fuze and replace qstab)