puzzle picture
631: Electron Density Puzzle 10
Status: Closed

Summary

Name: 631: Electron Density Puzzle 10
Status: Closed
Created: 09/18/2012
Points: 100
Expired: 09/25/2012 - 23:00
Difficulty: Intermediate
Description: In this electron density puzzle, we're starting you with an extended chain. You'll have to use the electron density as a guide in order to find the correct fold. Try to find the best fit for the protein inside of the guide, while still maintaining a good fold. We have posted the secondary structure predictions in the puzzle comments and put them on the starting extended chain. Get started by completing the electron density intro level (5-3).
Categories: Electron Density, Overall, Prediction

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Comments

beta_helix's picture
User offline. Last seen 23 hours 22 min ago. Offline
Joined: 05/09/2008
Groups: None
Please use these 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 7 & 68 are highly predicted to be part of a helix. However, the Valines at residues 31, 35, 43, 52, 88, 97, 101 & 120 are highly predicted to be in a sheet.

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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