Placeholder image of a protein
Icon representing a puzzle

360: Quest to the Native CASP9 Puzzle 3

Closed since over 15 years ago

Intermediate

Summary

Created
September 13, 2010
Expires
Max points
100
Description

We are giving you CASP9 Puzzle 3 again, but this time with the native structure as a guide. Use the alignment tool and try to match the native as much as possible. After threading, make sure to press G to Align the Guide. See the puzzle comments for additional information about this particular protein.

Top groups

  1. Avatar for turkish voluntered 21. turkish voluntered 1 pt. 7,793
  2. Avatar for Super Happy Fun Time 22. Super Happy Fun Time 1 pt. 2,872
  3. Avatar for Bio-Hazard 23. Bio-Hazard 1 pt. 0
  4. Avatar for Window Group 24. Window Group 1 pt. 0
  1. Avatar for sarahbruce93 231. sarahbruce93 Lv 1 1 pt. 7,202
  2. Avatar for coolgreen 232. coolgreen Lv 1 1 pt. 7,201
  3. Avatar for pppppppo_98 233. pppppppo_98 Lv 1 1 pt. 7,026
  4. Avatar for kurtrethorn 234. kurtrethorn Lv 1 1 pt. 6,912
  5. Avatar for weurhartdezirez 235. weurhartdezirez Lv 1 1 pt. 6,902
  6. Avatar for iNick 236. iNick Lv 1 1 pt. 6,799
  7. Avatar for CrimsonFisher 237. CrimsonFisher Lv 1 1 pt. 6,799
  8. Avatar for Alambix 238. Alambix Lv 1 1 pt. 6,798
  9. Avatar for Tyggy Too 239. Tyggy Too Lv 1 1 pt. 6,733
  10. Avatar for kiwijb 240. kiwijb Lv 1 1 pt. 6,631

Comments

beta_helix Staff Lv 1

The solved native structure for CASP9 Puzzle 3, target T0527, is missing 3 residues in the middle of the protein.

You can see it here:
http://www.rcsb.org/pdb/explore/images.do?structureId=3MR0
in the image on the top left, the green region has a chain break (next to the cyan/blue area).

Because of this, we have used Rosetta to fill in the 3 missing residues so that the guide has a continuous chain (since there aren't that many different places where those 3 residues could go)
These 3 residues are Glycine 47, Histidine 48, & Arginine 49.

Also, as Madde pointed out in the forum:
http://fold.it/portal/node/988108#comment-8844

the C-terminal helix points straight out, even though it has a bunch of hydrophobic residues.