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784: De-Novo Freestyle 31 with Predicted Contacts
Status: Closed


Name: 784: De-Novo Freestyle 31 with Predicted Contacts
Status: Closed
Created: 09/22/2013
Points: 100
Expired: 10/02/2013 - 15:00
Difficulty: Intermediate
Description: This is the first puzzle to include a new kind of data: Predicted Contacts. You can see the predicted contacts for this protein by clicking the Contact Map button in the Main menu (Selection Interface) or in the Actions tab (Classic Interface). Blue squares represent predicted contacts; a darker blue color means there is stronger evidence for a contact prediction. There is a score multiplier that increases whenever you bring together two residues that make a predicted contact. Find a high-scoring fold that satisfies the most contact predictions!
Categories: Overall, Prediction

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bkoep's picture
User offline. Last seen 12 hours 26 min ago. Offline
Joined: 11/15/2012
Groups: Foldit Staff
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 2 & 3 are highly predicted to be part of a sheet. However, the Valines at residue 34 is predicted to be in a helix!

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


If you are a new Foldit player, please make sure you have completed all these tutorials before trying this puzzle:
- lonely sheets,
- lock and lower,
- rebuild,
- structure and rebuild,
- control over clashing.

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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, Boehringer Ingelheim, RosettaCommons