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1131: 60 Residue Symmetric Trimer: Satisfied H-bonds
Status: Closed


Name: 1131: 60 Residue Symmetric Trimer: Satisfied H-bonds
Status: Closed
Created: 08/26/2015
Points: 100
Expired: 09/04/2015 - 23:00
Difficulty: Intermediate
Description: Update: In response to a server outage, the expiration date of this puzzle has been extended to 09/04/2015 - 23:00 GMT.

In this puzzle, the bonus for Hbond networks has been doubled, but only Hbond networks that are at least 75% satisfied will be rewarded. We've also amended this puzzle so that the Core Exists filters should be easier to satisfy. There are several other filters 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!
Categories: Design, Overall, Symmetry

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bkoep's picture
User offline. Last seen 12 hours 1 min ago. Offline
Joined: 11/15/2012
Groups: None

Residue IE Score: Monitors that all PHE, TYR, and TRP residues are scoring well.

HBond Network: Rewards networks comprising at least three hydrogen bonds, with at least one hydrogen bond spanning the dimer interface. In addition, at least 75% of all polar atoms in the network must make hydrogen bonds.

Core Existence: Monomer: Ensures that at least 18 residues are buried in the core of the monomer unit.

Core Existence: Complex: Ensures that at least 66 residues are buried in the core of the entire complex (including the interface between monomer units).

Fragment Score: Scans for parts of your design that are unlikely to fold up naturally. Use Rebuild and Remix tools to fix these regions of your design!

Joined: 04/10/2015
Groups: Beta Folders
Go for more HBN

Is it possible to get for a next Hbond Puzzle instead of a dimer or a trimer a fourmer (is it right in English?) ?

With lower Monomer requirement (20% instead of 30%) and more interfase requirement (30% instead of 20%).

jeff101's picture
User offline. Last seen 1 hour 20 min ago. Offline
Joined: 04/20/2012
Groups: Go Science
4-mer = tetramer

1-mer = monomer
2-mer = dimer
3-mer = trimer
4-mer = tetramer
5-mer = pentamer
6-mer = hexamer

Joined: 04/10/2015
Groups: Beta Folders
thanks for the language

thanks for the language clarification...

bkoep's picture
User offline. Last seen 12 hours 1 min ago. Offline
Joined: 11/15/2012
Groups: None
Literature on satisfying hydrogen bonds

For those interested in why hydrogen bond networks need to be satisfied, see this paper by Fleming and Rose:

For easier reference, I've also posted in a comment on the HBNet Filter blog entry:

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