Placeholder image of a protein
Icon representing a puzzle

801: Abeta Binder Redesign

Closed since over 12 years ago

Intermediate

Summary

Created
October 28, 2013
Expires
Max points
100
Description

In this puzzle, you can redesign a protein that was found to bind Abeta, a peptide associated with Alzheimer's disease. See the blog post about this for more information. The Abeta protein backbone is frozen in this puzzle. The binding protein consists of two chains, in which you can mutate all but several loop residues. Each chain has a separate RMSD condition, so only slight backbone movements will be tolerated. This puzzle also includes a Residue IE filter, which monitors that all PHY, TYR, and TRP residues are scoring well. Remember, you can use the Upload for Scientists button for up to 3 designs that you want us to look at, even if they are not the best-scoring solutions. Help us design a tighter-binding protein for Abeta!

Top groups

  1. Avatar for Deleted group 11. Deleted group pts. 13,123
  2. Avatar for HMT heritage 12. HMT heritage 4 pts. 13,117
  3. Avatar for Deleted group 13. Deleted group pts. 13,110
  4. Avatar for L'Alliance Francophone 14. L'Alliance Francophone 2 pts. 13,102
  5. Avatar for Russian team 15. Russian team 1 pt. 13,034
  6. Avatar for Curtin Crowd 16. Curtin Crowd 1 pt. 12,838
  7. Avatar for Crunching Family 17. Crunching Family 1 pt. 12,785
  8. Avatar for DSN @ Home 18. DSN @ Home 1 pt. 12,770
  9. Avatar for Natural Abilities 19. Natural Abilities 1 pt. 12,738
  10. Avatar for Cell Biology Smith Fall 2013 20. Cell Biology Smith Fall 2013 1 pt. 12,657
  1. Avatar for boondog 161. boondog Lv 1 1 pt. 9,051
  2. Avatar for Deleted player 162. Deleted player pts. 8,935
  3. Avatar for homme-proteine 163. homme-proteine Lv 1 1 pt. 8,761
  4. Avatar for WBarme1234 164. WBarme1234 Lv 1 1 pt. 8,585
  5. Avatar for yxz 165. yxz Lv 1 1 pt. 8,533
  6. Avatar for Galaxie 166. Galaxie Lv 1 1 pt. 7,551
  7. Avatar for SimplySue 167. SimplySue Lv 1 1 pt. 5,999
  8. Avatar for jflat06 168. jflat06 Lv 1 1 pt. 0
  9. Avatar for turkeyboy13 169. turkeyboy13 Lv 1 1 pt. 0
  10. Avatar for bkoep 170. bkoep Lv 1 1 pt. 0

Comments

Mike Cassidy Lv 1

The two different Exploration multiples are for the two different parts? Just making sure I understand what is there.

bkoep Staff Lv 1

The starting model of the binding protein is a dimer of two nearly-identical chains. There is an RMSD filter for each chain of the binding protein.

I apologize that we could not label each filter for its corresponding chain.

wisky Lv 1

Seems the only way to get a decent score on this puzzle is to place arginines all across the outside of the helices. Something just seems off about it.