puzzle picture
1794: CRISPR-Cas Transposase Part I: Electron Density
Status: Closed

Summary

Name: 1794: CRISPR-Cas Transposase Part I: Electron Density
Status: Closed
Created: 01/31/2020
Points: 100
Expired: 02/07/2020 - 23:00
Difficulty: Advanced
Description: Fold the transposase protein into a density map! This is a followup to Puzzle 1784: CRISPR-Cas Transposase Part I, now with a cryo-EM density map! Players may load in previous work from Puzzle 1784.

CRISPR-Cas is a mixed complex of RNA and proteins, which work together to make a very precise cut in a cell's DNA. Scientists recently discovered a variant of CRISPR-Cas that coopts a new protein called a transposase. In addition to cutting DNA, the transposase also allows precise insertion of new material into a target DNA strand. This new variant could lead to more efficient gene editing with CRISPR-Cas! New cryoEM experiments have shed some light on the transposase structure, which was previously unknown.

We're asking Foldit players to help solve how this transposase protein folds! The transposase is a large 400-residue protein, so this puzzle only includes the first half of the protein, and we will post the second half of the protein in a follow-up puzzle. In this puzzle we've provided only the portion of density for this half of the transposase protein.

Sequence:
MFLQRPKPYSDESLESFFIRVANKNGYGDVHRFLEATKRFLQDIDHNGYQTFPTDITRINPYSAKNSSSARTASFLKLAQLTFNEPPELLGLAINRTNMKYSPSTSAVVRGAEVFPRSLLRTHSIPCCPLCLRENGYASYLWHFQGYEYCHSHNVPLITTCSCGKEFDYRVSGLKGICCKCKEPITLT
Categories: Electron Density, Overall, Prediction

Top Groups

RankGroupScorePoints
1Go Science21,604100
2Anthropic Dreams21,30273
3Beta Folders17,40152
4Contenders16,95636
5Hold My Beer16,62724

Top Evolvers

Top Soloists



Need this puzzle? Log in to download.  

Comments

LociOiling's picture
User offline. Last seen 7 hours 27 min ago. Offline
Joined: 12/27/2012
Groups: Beta Folders
it's like deja vu all over again

no scoreboards

bkoep's picture
User offline. Last seen 13 hours 44 min ago. Offline
Joined: 11/15/2012
Groups: None
Weird

Not sure why the scoreboards are having trouble with these CRISPR puzzles... Still haven't been able to track down the issue

Merf's picture
User offline. Last seen 4 hours 41 min ago. Offline
Joined: 01/01/2010
Groups: None
Puzzle 1794.

Yes!!! Just like 1784, but don't hold you breath waiting for a response!

Merf's picture
User offline. Last seen 4 hours 41 min ago. Offline
Joined: 01/01/2010
Groups: None
Puzzle 1794.

I wonder if these comments are actually monitored. Perhaps the powers
that be at Foldit just couldn't care less! Hmmm, a tricky one.

Merf.

Joined: 09/24/2012
Groups: Go Science
More time needed

More time is needed for such complex ED: total 2 weeks.

bkoep's picture
User offline. Last seen 13 hours 44 min ago. Offline
Joined: 11/15/2012
Groups: None
Definitely a challenge!

We want to do a quick first pass on both parts of this protein in just a couple weeks. If it seems like there is more to be done after that, we can post follow-ups with more time (and with sharing enabled from previous puzzles).

frood66's picture
User is online Online
Joined: 09/20/2011
Groups: Marvin's bunch
7 days would be just fine if

7 days would be just fine if the definition was just a tad better. Think of our eyesight FC! lol

alwen's picture
User offline. Last seen 18 hours 10 min ago. Offline
Joined: 10/03/2011
So frustrating! All those

So frustrating! All those large sidechains (tyrosine, phenylalanine, tryptophan) and I can hardly pick out a one!

ZeroLeak7's picture
User offline. Last seen 2 hours 8 min ago. Offline
Joined: 01/25/2012
Groups: Go Science
the density cloud is very low

We need a better density cloud!
can't see where the loops are going.

horowsah's picture
User offline. Last seen 1 day 17 hours ago. Offline
Joined: 03/17/2016
underlying data

It's an issue with the underlying cryoEM data... this is the best that could be done in the experiment. When the data isn't great, it makes things hard.

Merf's picture
User offline. Last seen 4 hours 41 min ago. Offline
Joined: 01/01/2010
Groups: None
Puzzle 1794. Still no scoreboard.

This is very interesting. It would seem that the scoreboard works for some players, but not for others.
Could this be a local issue?

LociOiling's picture
User offline. Last seen 7 hours 27 min ago. Offline
Joined: 12/27/2012
Groups: Beta Folders
looks like it's working now

we have scoreboards

Merf's picture
User offline. Last seen 4 hours 41 min ago. Offline
Joined: 01/01/2010
Groups: None
Puzzle 1794.

Indeed, we have a scoreboard. For which, many thanks!

Merf.

Joined: 09/24/2012
Groups: Go Science
Extremely difficult

ED is extremely difficult with large loops.

Susume's picture
User offline. Last seen 42 min 19 sec ago. Offline
Joined: 10/02/2011
Too difficult for one week

I've worked on this daily since it came out, multiple hours each day, and still don't have it all placed with less than 48 hours to go. I'm running scripts on whatever is my latest version in the background, but if I do finish the placement I won't have time for much scripted refinement on that last version. It's really too difficult to finish in a week. I hope you don't release the second one right away, as I need to catch up on all the things I have put off to work on this one.

agcohn821's picture
User offline. Last seen 1 day 11 hours ago. Offline
Joined: 11/05/2019
Groups: None
Great feedback!

I'm hearing a lot of concern about it being too difficult--thank you all for your input! This is an interesting point and I'll bring it back to the team.

bkoep's picture
User offline. Last seen 13 hours 44 min ago. Offline
Joined: 11/15/2012
Groups: None
Very difficult

Sorry to say, the next density puzzle will come right after this one.

But don't worry too much if you feel like you can't finish the puzzle! We will definitely see more of these puzzles, and we will make sure players can load in previous work.

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