Placeholder image of a protein
Icon representing a puzzle

551: Pre-CASP blind Alignment Puzzle 3

Closed since almost 14 years ago

Advanced Overall Prediction

Summary

Created
April 29, 2012
Expires
Max points
100
Description

Here is another blind Template-Based Modeling target to work on. This target is 153 residues and we are again giving you the top-predicted template from 3 different alignment programs (you'll notice that two of them are identical templates, but slightly different alignments) The secondary structure predictions will be posted in the puzzle comments soon.

Top groups

  1. Avatar for L'Alliance Francophone
    1. L'Alliance Francophone
    100 pts. 12,067
  2. Avatar for Anthropic Dreams 2. Anthropic Dreams 83 pts. 12,065
  3. Avatar for Go Science 3. Go Science 68 pts. 12,053
  4. Avatar for Contenders 4. Contenders 55 pts. 12,024
  5. Avatar for Void Crushers 5. Void Crushers 44 pts. 11,982
  6. Avatar for Deleted group 6. Deleted group pts. 11,862
  7. Avatar for foldeRNA 7. foldeRNA 27 pts. 11,815
  8. Avatar for Russian team 8. Russian team 21 pts. 11,790
  9. Avatar for SETI.Germany 9. SETI.Germany 16 pts. 11,622
  10. Avatar for Gargleblasters 10. Gargleblasters 12 pts. 11,474
  1. Avatar for jflat06 291. jflat06 Lv 1 1 pt. 3,912
  2. Avatar for david-jan 292. david-jan Lv 1 1 pt. 3,912
  3. Avatar for smjpl 293. smjpl Lv 1 1 pt. 3,912
  4. Avatar for steamywindow 294. steamywindow Lv 1 1 pt. 3,912
  5. Avatar for beta_helix 295. beta_helix Lv 1 1 pt. 3,912
  6. Avatar for Sellod 296. Sellod Lv 1 1 pt. 3,912
  7. Avatar for tigete 297. tigete Lv 1 1 pt. 3,912
  8. Avatar for tmhodge 298. tmhodge Lv 1 1 pt. 3,912
  9. Avatar for deathbat_87 299. deathbat_87 Lv 1 1 pt. 3,912
  10. Avatar for camille.schwartz 300. camille.schwartz Lv 1 1 pt. 3,912

Comments

beta_helix Staff Lv 1

The SAM-T08 server had a power failure last Thursday and hasn't recovered yet.
I will post them as soon as SAM-T08 is back up and running.

beta_helix Staff Lv 1

Here are some other secondary structure predictions (that are sadly not as easy to look at):

H = helix
E = sheet
C = loop (or coil)

The higher the number at the top of each position, the higher the probability of that specific secondary structure for that amino acid.

For example, the Phenylalanine at residue 10 is mostly predicted to be part of a helix (an H with a 8 above it). However, the Phenylalanine at residue 55 is predicted to be in a sheet (an E with a 9 above it).

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 88 is highly predicted to be part of a helix. However, the Valine at residue 32 is predicted to be anything.