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Beginner Puzzle: Parabacteroides Distasonis
Status: Closed

Summary

Name: Beginner Puzzle: Parabacteroides Distasonis
Status: Closed
Created: 07/11/2013
Points: 0
Expired: 08/29/2030 - 23:00
Difficulty: Beginner
Description: We are giving you this Parabacteroides Distasonis protein as an extended chain. The native is shown as a guide on this puzzle, so try using everything you have learned in the Intro levels to match the native fold. The secondary structure predictions are provided on the starting model, with more details posted in the puzzle comments. This puzzle is designed for veteran Foldit players to help new players, thus this puzzle appears in the Gallery.
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Comments

Joined: 09/25/2012
Groups: None
Here are the secondary structure predictions

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 25 & 58 are highly predicted to be part of a sheet. However, the Alanines at residues 40 & 47 are predicted to be in a helix!

The above predictions are already on the starting model (based on the horizontal lines in the above figure).

_____________________________

Here is a link to the native:
http://www.rcsb.org/pdb/explore/explore.do?structureId=4jm1

gitwut's picture
User offline. Last seen 3 years 3 weeks ago. Offline
Joined: 05/18/2012
Groups: Contenders
How does the Gallery mode work?

I couldn't find any relevant information on the site (or wikki) about how the gallery mode works?

Could you please post a link to an explanation of how to use the gallery mode?

beta_helix's picture
User offline. Last seen 5 hours 4 min ago. Offline
Joined: 05/09/2008
Groups: None
This replaces the 0 point puzzle from before

This Gallery Mode version was to address the player concerns about having a 0 point puzzle:
http://fold.it/portal/node/995389

Ideally, we wouldn't need a second version of the puzzle since these Beginner Puzzles are only targeted at new players with <150 global points.

But the issue comes up where the new players ask for help and nobody with >150 can see the puzzle!
Initially we tried the 0 point puzzle, which was very confusing.

Hopefully this Gallery Mode version makes it simpler:
You can play it, but your score is crossed out so it will not count in any way.

Also, instead of cluttering the Puzzle Page with all these "just for helping new players" puzzles, making them Gallery Mode puzzles puts them at the bottom of the Puzzle List (above the Closed Puzzles), which is hopefully cleaner!

Joined: 04/15/2012
Groups: Beta Folders
Yes, but how do we use the

Yes, but how do we use the gallery features?

beta_helix's picture
User offline. Last seen 5 hours 4 min ago. Offline
Joined: 05/09/2008
Groups: None
You can't use the gallery features :-(

Sorry for the confusion, but we are just using Gallery Mode for its "your score doesn't count" feature... nothing else.

Previously, we've used Gallery Mode to show you different player solutions that you can cycle through and manipulate (such as these player designs: http://fold.it/portal/node/992498) and your score wouldn't count.

That last part is the only element of Gallery Mode that we are using here (to avoid the 0 point regular puzzle).

It is obvious that this is not the ideal solution, and we need to come up with something better and much less confusing! But at least for now, this is better than adding a 0 point puzzle.

Thanks for your patience on this and sorry again for the lack of proper explanation!

Joined: 04/15/2012
Groups: Beta Folders
I see

Ah, thanks. That makes sense.

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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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