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718: Hand-Folding Flu Puzzle: Design the Core
Status: Closed


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beta_helix's picture
User offline. Last seen 19 hours 34 min ago. Offline
Joined: 05/09/2008
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About the RMSD condition

We need you to focus on improving the core of this protein, so we don't want you to change the overall shape of the protein too much.
That is why there is a RMSD condition, where you cannot drift more then 2 Angstroms RMSD from the C-alpha backbone of the starting structure.
You can click on Show in the panel below your Score to see where the starting backbone is.
If you deviate over 2 Angstroms from the start, your score will no longer count.
Because the starting model doesn't have a proper core, if you just wiggle right away it will collapse onto itself and violate the condition. You probably want to manually mutate the core of the protein first, before using wiggle so as not to violate the condition.

This is a Hand-Folding Round:

This round only GUI scripts are allowed and sharing has been disabled. After this puzzle expires, the puzzle will be re-posted and LUA scripts and sharing will be allowed. You'll be able to load in your solutions from this puzzle and use scripting and sharing.

beta_helix's picture
User offline. Last seen 19 hours 34 min ago. Offline
Joined: 05/09/2008
Groups: None
Please try to keep the ends of the protein away from the core!

Once it's up, I will post a link to the log of the Scientist Chat where Baker Lab Scientist Aaron explained how both ends of the protein (residues 270-273 and 314-316) need to be pointing away from the core.

Hopefully the RMSD condition keeps this from happening, and we do not have to add an even more strict RMSD condition to these two ends.

EDIT: transcript is now up:

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