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 Anthropic Dreams
    1. Anthropic Dreams
    100 pts. 5,313
  2. Avatar for SETI.Germany 2. SETI.Germany 81 pts. 5,026
  3. Avatar for Void Crushers 3. Void Crushers 64 pts. 4,992
  4. Avatar for foldeRNA 4. foldeRNA 50 pts. 2,712
  5. Avatar for Contenders 5. Contenders 39 pts. 1,979
  6. Avatar for Gargleblasters 6. Gargleblasters 30 pts. 1,772
  7. Avatar for Deleted group 7. Deleted group pts. 1,771
  8. Avatar for Go Science 8. Go Science 17 pts. 1,601
  9. Avatar for Beta Folders 9. Beta Folders 12 pts. 1,527
  10. Avatar for L'Alliance Francophone 10. L'Alliance Francophone 9 pts. 1,426
  1. Avatar for caglar 71. caglar Lv 1 27 pts. 1,051
  2. Avatar for Popcorn187 72. Popcorn187 Lv 1 27 pts. 1,050
  3. Avatar for abrakadabra 73. abrakadabra Lv 1 26 pts. 1,037
  4. Avatar for micheldeweerd 74. micheldeweerd Lv 1 26 pts. 1,037
  5. Avatar for tscherulli 75. tscherulli Lv 1 25 pts. 1,030
  6. Avatar for MooMooMan 76. MooMooMan Lv 1 24 pts. 1,018
  7. Avatar for pgiles 77. pgiles Lv 1 24 pts. 1,005
  8. Avatar for drumpeter18yrs9yrs 78. drumpeter18yrs9yrs Lv 1 23 pts. 1,002
  9. Avatar for cobaltteal 79. cobaltteal Lv 1 23 pts. 987
  10. Avatar for evilgrinners 80. evilgrinners Lv 1 22 pts. 976

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?