Closed since over 14 years ago
Advanced Overall PredictionThis advanced puzzle requires using the Alignment Tool. There is only one template you can thread with, but unfortunately the alignment is incorrect. You will need to master Intro Puzzles 6-1 through 6-3 to succeed in this puzzle. Make sure to move the alignment around and try to help Foldit resolve the gaps in the alignment (see puzzle comments for tips).
We know the starting alignment is wrong, you might even have trouble threading it at all:
In the above screenshot, Foldit cannot resolve the gap between the red R and the D, therefore the alignment needs to be moved around so that Foldit is able to thread the sequence onto the template.
Do we have a server structure prediction for this one ?
It would help the newer players who were not around when the alignment tool was implemented for this puzzle alignment solution and subsequent state to be shown as a video. The current tutorial is very basic.
I can do 7 layer phylo sequences easily but the connection between clicking on the actual puzzle and the letter alignment I find quite baffling. And yes I have read the instructions and watched the existing video. thanks
If you feel that would be useful, we can post server predictions for this one.
The best servers will most likely use this exact template, so we're hoping the Alignment Tool can get the job done.
I'll get server predictions ready for this one so we can repost the puzzle if needed.
We should definitely make a tutorial video using this example since the initial alignment is clearly wrong.
Once this puzzle is closed (and some of you have been able to correctly move the alignment around) remind me (feel free to PM me about this) to make a video of those correct moves.
Thanks for the great suggestion!
What I actually meant was SAM prediction, I should have been more specific.
We'll repost this one as a quick puzzle with the secondary structure predictions from the SAM server.
I find those very helpful whenever the puzzle is not a very close match, or when the shape is not well defined. I would actually like to request that we get them with all of the CASP puzzles this time around as well, since many times it is helpful to have a rough guide of where to explore variations in the protein. Especially when combined with server predictions or similar proteins to thread from, they really help to visualize where changes may need to be made to improve a structure.
The Contenders did a great job with this puzzle and infjamc gave me permission to repost a response from him to me. It is very informative and can be found at the following link:
