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286: Mini-CASP 20 - Better Alignments?
Status: Closed

Summary

Name: 286: Mini-CASP 20 - Better Alignments?
Status: Closed
Created: 04/14/2010
Points: 100
Expired: 05/10/2010 - 23:00
Difficulty: Intermediate
Description: Here are 10 different top scoring solutions from 'puzzle 286: Mini-CASP 20 - Better Alignments?'. Try to improve all 10 of them, the solution list will be repopulated often. Read the new blogpost for more info about All Hands.
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beta_helix's picture
User offline. Last seen 4 hours 48 min ago. Offline
Joined: 05/09/2008
Groups: None
Problems with some of the templates for Mini-CASP 20 -Alignments

Many of you noticed (http://fold.it/portal/node/987562) that in puzzle '283: Mini-CASP 20 - Alignments' there were stretched bonds after threading.

Normally, when you thread and a gap needs to be resolved, Foldit fixes this by shrinking the loop.

The problem in this case was that the solved structures for these templates actually had these stretched bonds!!!

Attached is a screenshot of one of the templates: 1n8z (http://www.rcsb.org/pdb/explore/images.do?structureId=1N8Z).


The gap in yellow at the top is in the solved structure. You would think that this is just missing density (that there are a few residues in between there that were disordered or couldn't be solved) but no: that gap is from Leucine 101 to Serine 102.

Sadly, there is nothing we can do about this sort of thing (other than give you what are hopefully better templates) and it might be the case during CASP 9 that the 'best' templates have these kinds of problems!

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