puzzle picture
618: Bonus Impossibly Difficult CASP10 Puzzle
Status: Closed

Summary

Name: 618: Bonus Impossibly Difficult CASP10 Puzzle
Status: Closed
Created: 08/15/2012
Points: 70
Expired: 08/24/2012 - 19:00
Difficulty: Advanced
Description: The last CASP10 puzzle just closed, so we thought we'd post this tough target (for anyone going through CASP10 withdrawal) that we weren't able to give you during CASP. This refinement target, TR699, has a starting GDT_TS=85 and "should be treated as a dimer". Oh yes, and it's 234 residues! Read the puzzle comments for more details and how to deal with large proteins.
Categories: Overall, Prediction, Symmetry

Top Groups

RankGroupScorePoints
1Anthropic Dreams22,37970
2Contenders22,16758
3Beta Folders21,96647
4foldeRNA21,94339
5Go Science21,82031

Top Evolvers

Top Soloists



Need this puzzle? Log in to download.  

Comments

beta_helix's picture
User offline. Last seen 3 days 18 hours ago. Offline
Joined: 05/09/2008
Groups: None
You thought CASP10 was over?

In CASP9 we had to skip these types of targets, because symmetry was not possible with Foldit... but that is no longer the case!

We wanted to give you the opportunity to fold TR699 in the context of a dimer, but we realize that this was already a big protein, and symmetry makes it even bigger.

This is why it is only worth 70 global points, think of it as an "extra credit" puzzle... it's just for fun so don't be too frustrated if it barely runs on your computer.

___Some possible hints___

I recommend turning off all sidechains, using Cartoon Thin, with Hydro Color and only showing Clashes. (If this is still too slow, you can try using "Line")

Since it forms a dimer, you probably want to look for a hydrophobic patch where the two sections come together. Coloring by Hydro can help you try to get as much orange at the interface.

If you have trouble loading this puzzle, try checking the box "disable network timeouts" when you login.

Please try to have fun with this one.
If it frustrates you, then at least be happy we didn't post it during CASP10!
___________________________________________________
This is the page for this CASP10 refinement target:
http://predictioncenter.org/casp10/target.cgi?id=198

Note that the organizers gave us this hint:

"Starting model GDT_TS=85. Target should be treated as a dimer. "

GDT_TS=85 essentially means that ONLY 85% of the model superimposes correctly onto the native structure:
http://en.wikipedia.org/wiki/Global_distance_test

Here is the sequence logo predicted by the SAM server:

H = helix
E = sheet
C = loop (or coil)

The taller the letter at each position, the higher the probability of that specific secondary structure for that amino acid.

For example, the Valine at residue 44 is highly predicted to be part of a helix. However, the Valine at residue 56 is predicted to be in a sheet.

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