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487: CASP ROLL Puzzle 1

Closed since over 14 years ago

Advanced Overall Prediction

Summary

Created
December 01, 2011
Expires
Max points
100
Description

This is the first CASP ROLL target: R0001. We are giving it to you as a freestyle puzzle while we wait for the server predictions to come back. We are providing you with secondary structure predictions that are posted in the puzzle comments and included in the starting structure as well. It's 183 residues long, but get used to this protein because it's deadlline isn't until February!

Top groups

  1. Avatar for Nerdfighters 31. Nerdfighters 1 pt. 9,390
  2. Avatar for Czech National Team 32. Czech National Team 1 pt. 9,366
  3. Avatar for Bree Fradley Manning 33. Bree Fradley Manning 1 pt. 9,216
  4. Avatar for Deleted group 34. Deleted group pts. 9,006
  5. Avatar for TSC! Russia 35. TSC! Russia 1 pt. 8,765
  6. Avatar for Penny-Arcade 36. Penny-Arcade 1 pt. 8,491
  7. Avatar for Team Germany 1 37. Team Germany 1 1 pt. 8,076
  8. Avatar for CHNO Junkies 38. CHNO Junkies 1 pt. 7,250
  9. Avatar for DSN @ Home 39. DSN @ Home 1 pt. 7,189
  10. Avatar for Deleted group 40. Deleted group pts. 4,358
  1. Avatar for Adri1_P 391. Adri1_P Lv 1 1 pt. 7,254
  2. Avatar for Moose356 392. Moose356 Lv 1 1 pt. 7,252
  3. Avatar for pmlkjn 393. pmlkjn Lv 1 1 pt. 7,250
  4. Avatar for Msctap 394. Msctap Lv 1 1 pt. 7,249
  5. Avatar for mashrafinia 395. mashrafinia Lv 1 1 pt. 7,249
  6. Avatar for Orion_IC434 396. Orion_IC434 Lv 1 1 pt. 7,249
  7. Avatar for Blackwoodr 397. Blackwoodr Lv 1 1 pt. 7,249
  8. Avatar for bmb120 398. bmb120 Lv 1 1 pt. 7,248
  9. Avatar for Crst 399. Crst Lv 1 1 pt. 7,248
  10. Avatar for Tryptophantom 400. Tryptophantom Lv 1 1 pt. 7,247

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 Valine at residue 3 is highly predicted to be part of a sheet. However, the Valine at residue 116 is predicted to be anything.

Parclytaxel Lv 1

It seems like the placement and identity of the other segments force that sequence to be a loop, rather than a (as predicted by the server to be slightly more likely) sheet.

B_2 Lv 1

Is this a previously unsolved protein, or is this just enhancing a known or previously predicted structure?

I can't tell from the CASP site, since 90% of what's on there is gibberish to a layman.