puzzle picture
1378: Hemagglutinin Binder Design: Loop Graft
Status: Closed

Summary

Name: 1378: Hemagglutinin Binder Design: Loop Graft
Status: Closed
Created: 05/15/2017
Points: 0
Expired: 05/22/2017 - 23:00
Difficulty: Intermediate
Description: Note: This puzzle was closed early due to an error in the baseline score. The puzzle has been reposted as Puzzle 1378.

Design a protein that contains the provided hemagglutinin-binding loop! Hemagglutinin is a protein from the influenza virus. It is displayed on the surface of the virus capsid, and allows the virus to recognize and infiltrate human cells. One particular region of the hemagglutinin protein undergoes a dramatic shift during infection; it's thought that stabilizing this region (e.g. with a protein binder) can prevent the normal function of hemagglutinin and stop infection. In fact, during an influenza infection, the immune system can sometimes raise antibody proteins that bind this portion of hemagglutinin to defend against further infection. In this puzzle, we've provided a portion of the hemagglutinin protein, as well as a hemagglutinin-binding loop that is derived from one such antibody protein. We're asking Foldit players to design a new protein that incorporates this same loop!

The backbone and certain residues of the loop are fixed, and the loop is held in place with strong constraints. The starting structure of the design has 53 residues, but players may add residues up to a total of 63. Players may also delete and redistribute residues on either side of the prescribed binding loop. See the puzzle comments for filter details.
Categories:

Top Groups

Top Soloists



Need this puzzle? Log in to download.  

Comments

gitwut's picture
User offline. Last seen 24 weeks 1 day ago. Offline
Joined: 05/18/2012
Groups: Contenders
All Scores zero on this puzzle/page and Client group/solo

All Scores for this puzzle/page are zero. Client group/solo scoreboard as well.

SaraL's picture
User offline. Last seen 51 weeks 2 days ago. Offline
Joined: 09/20/2011
Groups: Gargleblasters
Strange behavior

I'm not sure if this puzzle is operating correctly - I transformed the locked portion of the helices to loops and attempted to wiggle to see how they would behave.

They disconnected from the main protein and began wiggling randomly in the space occupied by the locked protein - All scores remained at 0 however.

Joined: 09/24/2012
Groups: Go Science
difficult to get positive points

It's a blind competition met all players bellow zero (and thus zero in the scoreboard).

I succeeded to get the 160 bonus, but still -28000 pts.

Joined: 09/24/2012
Groups: Go Science
unideal hemagglutinin ?

It sounds like the given portion of the hemagglutinin is unideal.

Segments with worst score parts of hemagglutinin:
-----------------------------
segment 177 ideality: -480342.072
segment 178 ideality: -480320.597
segment 111 ideality: -92218.795
segment 110 ideality: -92206.196

SaraL's picture
User offline. Last seen 51 weeks 2 days ago. Offline
Joined: 09/20/2011
Groups: Gargleblasters
Unideal?

Would the solution then be to get the worst possible outcome? Wiggle to 0.01 clash importance?

SaraL's picture
User offline. Last seen 51 weeks 2 days ago. Offline
Joined: 09/20/2011
Groups: Gargleblasters
Broken?

Update: I think I broke the puzzle.

https://gyazo.com/b1cb00b534acda0a0f2cb6d852d0a37a

Joined: 09/24/2012
Groups: Go Science
haha

amazing

Joined: 09/24/2012
Groups: Go Science
btw

I recommend you to change to advanced GUI (Menu _ general Options ). You'll see your negative score.

Joined: 09/24/2012
Groups: Go Science
abnormal seg 178

Seg 178 (glycine) is ablormaly long, about 20 A. I understand now why it's unideal !

Joined: 09/24/2012
Groups: Go Science
tip to see the ligand

it's near to our protein. View all sidechains or shake or view bonds to helices, sidechains, helices or loops

Joined: 11/03/2011
rebuild

rebuild is not working for me and blows up the client.

bkoep's picture
User offline. Last seen 1 hour 30 min ago. Offline
Joined: 11/15/2012
Groups: None
Thanks for the feedback!

We've closed this puzzle and reposted it here to correct the scoring issue. It should now be easier to break out of negative scores.

We're aware of some further difficulties in gameplay, but don't have any easy solutions at this time. However, please keep us updated about any specific bugs that you encounter—especially client crashes!

Joined: 06/06/2013
Groups: Gargleblasters
too big to work on little old lady PC

this puzzle seems to count all segments unless select only the two strings for a particular action. It is making it too slow to load, guaranteed to crash the client. Sadly, giving up

Get Started: Download
  Windows    OSX    Linux  
Windows
(7/8/10)
OSX
(10.7 or later)
Linux
(64-bit)

Are you new to Foldit? Click here.

Are you a student? Click here.

Are you an educator? Click here.
Search
Only search fold.it
Recommend Foldit
User login
Soloists
Evolvers
Groups
Topics
Top New Users
Sitemap

Developed by: UW Center for Game Science, UW Institute for Protein Design, Northeastern University, Vanderbilt University Meiler Lab, UC Davis
Supported by: DARPA, NSF, NIH, HHMI, Amazon, Microsoft, Adobe, RosettaCommons