puzzle picture
620: Quest to the Contact Map
Status: Closed

Summary

Name: 620: Quest to the Contact Map
Status: Closed
Created: 08/20/2012
Points: 100
Expired: 08/27/2012 - 23:00
Difficulty: Advanced
Description: In this puzzle, we've given you the contact map of the native. Open the contact by going to [Actions]>[Contact Map]. The white squares show which regions are next to each other in the native. Try to bring these regions closer to match the native, and increase your score multiplier. You can click on the squares to show you which pieces of the model need to be closer.
Categories: Overall, Prediction

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Comments

marie_s's picture
User offline. Last seen 1 year 46 weeks ago. Offline
Joined: 05/18/2008
Groups: None
some explanation on contact map here
Joined: 08/09/2010
working with 620

what I'm doing

1. - Check the white spots on the exploration map.

2. - Make the corresponding bands. Some bands are incompatible with others, avoid them.

3. - Stabilizes with CI = 0.50

4. - Maybe use a compressor with low CI (I have not used any)

5. - Once stabilized run a rebuilder with variable CI and reconstruction size 2-3. I have started with CI=0.50, when you don't get more points go up the CI +0.05 every time.

Right now 10,665 (rank 2) and current CI=0.75

I haven't used a known compressor, I have written for this one very very simple:

for seg=1,get_segment_count()-1 do
  deselect_all()
  select_index_range(seg,seg+1)
  do_local_rebuild(3)
  set_behavior_clash_importance(0.07)
  do_shake(1)
  set_behavior_clash_importance(0.50)
  do_global_wiggle_all(4)
  set_behavior_clash_importance(1.00)
  do_shake(1)
  restore_recent_best()
end

Using sphere is a good idea.

I hope this helps.

Joined: 03/18/2012
Groups: Gargleblasters
extraneous dots on the right

To the right of the red/white contact map, in the grey margin, is a column with more black dots. These go on and off as you manipulate the protein, and I'm pretty sure their state influences the exploration multiplier. So why can't we click them and see their greatness?

Joined: 03/18/2012
Groups: Gargleblasters
extraneous dots on the right (explained)

The protein has 69 segments. The accessible part of the matrix has 67 rows and columns. The diagonal (including the 68th subdued column) represents the 68 adjacencies. The subdued column is towards the 69th segment and the problem was already filed as http://fold.it/portal/node/993369

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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