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 Ahura Mazda 151. Ahura Mazda Lv 1 3 pts. 9,340
  2. Avatar for Seneca 152. Seneca Lv 1 3 pts. 9,340
  3. Avatar for zyxzenze 153. zyxzenze Lv 1 3 pts. 9,315
  4. Avatar for pandeer 154. pandeer Lv 1 3 pts. 9,307
  5. Avatar for Melike Donertas 155. Melike Donertas Lv 1 3 pts. 9,274
  6. Avatar for zsteele 156. zsteele Lv 1 3 pts. 9,273
  7. Avatar for barbaranne 157. barbaranne Lv 1 2 pts. 9,247
  8. Avatar for winchedj 158. winchedj Lv 1 2 pts. 9,220
  9. Avatar for Bobanaut 159. Bobanaut Lv 1 2 pts. 9,214
  10. Avatar for sacredcow 160. sacredcow Lv 1 2 pts. 9,202

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.