puzzle picture
717: CASP ROLL Target R0034
Status: Closed

Summary

Name: 717: CASP ROLL Target R0034
Status: Closed
Created: 05/22/2013
Points: 100
Expired: 05/29/2013 - 20:00
Difficulty: Intermediate
Description: CASP ROLL started up again, but this is the first target that isn't too large for Foldit. We are giving you the 5 Rosetta Server models to work on. Resetting the puzzle will cycle through them, please try out all 5 starting points. The secondary structure predictions are provided on the extended chain in the Alignment Tool, with more details posted in the puzzle comments.
Categories: CASP ROLL, Overall, Prediction

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Comments

beta_helix's picture
User offline. Last seen 2 days 16 hours ago. Offline
Joined: 05/09/2008
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Additional info about this CASP Roll target

Here is the CASP link for this target (showing the amino acid sequence):
http://predictioncenter.org/casprol/target.cgi?id=78

____________________________________________________

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 Valines at residues 18, 54, 79 and 100 is highly predicted to be part of a helix. However, the Valine at residue 111 is not predicted to be anything!

The above predictions are already on the starting extended chain which is available in the Alignment Tool (based on the horizontal lines in the above figure).

bendbob's picture
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Joined: 05/06/2011
The information about this puzzle is incorrect, or ...

The puzzle information states: "this round only GUI scripts are allowed." This is not correct I am seeing regular LUA scripts run just fine.

beta_helix's picture
User offline. Last seen 2 days 16 hours ago. Offline
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Thank you for catching that bendbob

Sorry about that, the description should be correct now!

marie_s's picture
User offline. Last seen 2 weeks 3 days ago. Offline
Joined: 05/18/2008
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the alignment tool doesn't give the structure

and the extend is not is the reset cycle.

gramps's picture
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Joined: 12/16/2010
new public Recipe: 717 comment structs ...
beta_helix's picture
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Joined: 05/09/2008
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Explanation:

Because the Rosetta Server models do not match the secondary structure predictions, I did not want to bias you with Rosetta's structure.

The extended chain is only available in the alignment tool (for those who want it) but I did not want some players to randomly start with the extended chain if they didn't know they could reset to get a better model.
This is how we normally post CASP ROLL puzzles starting from Server Models (Puzzle 654, for example).
The extended chain does have the secondary structure predictions on it, however.

Thanks you gramps for providing that script for everyone!

marie_s's picture
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Joined: 05/18/2008
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The alignment tool doesn't give the structure

The alignment tool doesn't give the structure

http://fold.it/portal/files/chatimg/irc_33153_1369336157.png

beta_helix's picture
User offline. Last seen 2 days 16 hours ago. Offline
Joined: 05/09/2008
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that is indeed a bug!

I'm very sorry about that marie_s, I checked this before posting it, but clearly this isn't working correctly!

I'll look into what is going on, thankfully everyone can use gramps' script for now (good thing this wasn't a GUI-only round!)

dbuske's picture
User offline. Last seen 23 hours 8 min ago. Offline
Joined: 09/22/2011
Groups: Beta Folders
Bug

I haven't been able to access puzzle for days.
Crashes on loading. Whole program crashes to desktop

beta_helix's picture
User offline. Last seen 2 days 16 hours ago. Offline
Joined: 05/09/2008
Groups: None
I am very sorry to hear that, dbuske

Can you post your log.txt after the crash here:
http://fold.it/portal/node/995221

Hopefully we can figure out the issue!

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Developed by: UW Center for Game Science, UW Institute for Protein Design, Northeastern University, Vanderbilt University Meiler Lab, UC Davis
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