puzzle picture
807: De-novo Cryo-electron Density: Hand-folding Round
Status: Closed

Summary

Name: 807: De-novo Cryo-electron Density: Hand-folding Round
Status: Closed
Created: 11/07/2013
Points: 100
Expired: 11/15/2013 - 12:00
Difficulty: Advanced
Description: Try to fit this extended chain into the cryo-EM density cloud to gain points. This round only GUI scripts are allowed and sharing has been disabled. After this puzzle expires, the puzzle will be re-posted and LUA scripts and sharing will be allowed. You'll be able to load in your solutions from this puzzle and use scripting and sharing.
Categories: Electron Density, Hand-Folding, Overall, Prediction

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Comments

beta_helix's picture
User offline. Last seen 6 hours 21 min ago. Offline
Joined: 05/09/2008
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 41-42 are highly predicted to be part of a helix. However, the Valines at residue 67 and 94 are predicted to be in sheets!

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

More info about Cryo-electron microscopy here:
http://en.wikipedia.org/wiki/Cryo-electron_microscopy

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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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