Placeholder image of a protein
Icon representing a puzzle

662: Blind Electron Density 4

Closed since about 13 years ago

Advanced Overall Prediction Electron Density

Summary

Created
December 20, 2012
Expires
Max points
100
Description

This is our fourth electron density puzzle with real data. Like our previous puzzles, we were able to pinpoint which regions belong to a single copy, though the density itself is less clear. Try to fit the protein into the density to get the best score! Secondary Structure Predictions are posted in the puzzle comments.

Top groups

  1. Avatar for HMT heritage 11. HMT heritage 6 pts. 1,401
  2. Avatar for FoldIt@Netherlands 12. FoldIt@Netherlands 4 pts. 1,326
  3. Avatar for Richard Dawkins Foundation 13. Richard Dawkins Foundation 3 pts. 1,323
  4. Avatar for Russian team 14. Russian team 2 pts. 1,219
  5. Avatar for Natural Abilities 15. Natural Abilities 1 pt. 807
  6. Avatar for Piratenpartei Deutschland 16. Piratenpartei Deutschland 1 pt. 752
  7. Avatar for Brony@Home 17. Brony@Home 1 pt. 584
  8. Avatar for Eὕρηκα! Heureka! 18. Eὕρηκα! Heureka! 1 pt. 439
  9. Avatar for DNA Masters 19. DNA Masters 1 pt. 218
  10. Avatar for Freedom Folders 20. Freedom Folders 1 pt. 0
  1. Avatar for decbin 51. decbin Lv 1 41 pts. 1,223
  2. Avatar for ComputerMage 52. ComputerMage Lv 1 40 pts. 1,219
  3. Avatar for goastano 53. goastano Lv 1 39 pts. 1,213
  4. Avatar for jamiexq 54. jamiexq Lv 1 39 pts. 1,210
  5. Avatar for fishercat 55. fishercat Lv 1 38 pts. 1,201
  6. Avatar for tokens 56. tokens Lv 1 37 pts. 1,192
  7. Avatar for Tony Origami 57. Tony Origami Lv 1 36 pts. 1,190
  8. Avatar for Roman Estep 58. Roman Estep Lv 1 36 pts. 1,183
  9. Avatar for boondog 59. boondog Lv 1 35 pts. 1,179
  10. Avatar for retiredmichael 60. retiredmichael Lv 1 34 pts. 1,170

Comments

beta_helix Staff Lv 1

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 amino acid Leucine at residue 37 is highly predicted to be part of a sheet. However, the Valines at residues 6-7 & 97 have an equal probability of being anything.

bertro Lv 1

I believe it is possible to improve this density cloud clarity:

1) The current density map seems to have been saved with a step of 2 (judging by the rough angles of the blobs) giving us a much rougher image to work with than with a step of 1.

2) Plus some dust cleaning (removing small blobs) would also greatly enhance our ability to navigate and distinguish the shape of the protein.

Please, could you re-submit the puzzle with a smoother/cleaner density cloud?

Thanks

grogar7 Lv 1

This puzzle seems to have disappeared from my list of available science puzzles. It is not supposed to have expired for several hours. Explanation?