This is the official question thread our next Science Chat, and this paper of course, will be the main theme (but other science questions for Foldit are welcome).
The Date: 27 September 2016 (Tuesday)
The location: #veteran, IRC (Get help with chat here.)
The Time: 2100-2200 (or so, but the official chat ends after an hour) GMT (aka 1400-1500 PT)
The Time Zone Converter: Right this way!
Please be sure to put your questions below.
Is the structure published in the PDB (pdb 5KCI) taken directly from a foldit solution, or was additional processing applied? What was the Rosetta score of the foldit solution that was selected for publication in the PDB?
Puzzle 1193: UMich Challenge: Refined Density
(http://fold.it/portal/node/2002056)
is related to
Puzzle 1152: Foldit vs. UMich Electron Density Challenge
(http://fold.it/portal/node/2001344)
Did any results from Puzzle 1193 go into the Nature paper
discussed at http://fold.it/portal/node/2002791 ?
Is replication not a concern?
The Foldit better matched the density after removing the unordered segments.
What about refining these unordered segments?
1) Arent' they important for the full function of the protein?
2) Are these segments part of the (before competition) published structure? and where them there correct?
The beginning of the movie is understandable (it's the main hand fold part).
At the end, it's like seeing a DRW working in accelerated.
Do you have a track of all the moves of all the solutions?
[I suppose that a command counted as unique (thus not multiplied by the number of iterations)?]
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It's quite interesting to see that "pure hand manipulations" (rigid body, tweak and pull) represent only about 3.26% of the moves while this is the most strategic part of folding, as seen in the movie.
1) What is the share hand/tools for Trained crystallographers?
Supplementary note 2: "this highly conserved channel is the most likely α - synuclein binding site".
Butler et al (2016), Dopamine Transporter Activity Is Modulated by α-Synuclein:
"α-Synuclein is implicated in neurodegenerative disease and drug addiction."
"Understanding the mechanisms associated with α-synuclein regulation of DAT may reveal disease-modifying targets for the treatment of pathologies associated with DA dysregulation."
HTC1 is quite a great discovery !
Question: How did you know α-Synuclein was a good candidate for this HTC1 conserved channel?
sorry, the answer is in your reference 10 (the reason you choose this protein) …
Have foldit designs gotten more realistic since the Ideal Loop filter was introduced? Are any being produced for lab testing?
What problems remain with the designs you are seeing now?