puzzle picture
542: Advanced Alignment Cutpoint Puzzle
Status: Closed


201slandwirt 46 1458  8,9931
202hada 46 416  8,9881
203Exo-329 46 1458  8,9771
204richard c 46 1458  8,9751
205michaelsgdec 46 1458  8,9711
206nmos1056 46 1458  8,9461
207GreekCivilization 46 1458  8,9451
208rinze 46 51  8,9301
209JameAlec 46 1458  8,9281
210Minalia 46 1458  8,9221
211ytaipsw 46 1458  8,9201
212dldahlen 46 1458  8,9161
213Geogina 46 1458  8,8941
214test 46 1458  8,8541
215Lumir 46 1458 Czech National Team8,8131
216fabrice13100 46 1458  8,8061
217bull 46 1458 Team China8,7831
218utaca 46 1458  8,7541
219steamywindow 46 1458  8,7441
220tela 46 1458  8,7371
221Moxieman19 46 1458  8,7161
222heyubob 46 354  8,7041
223Ameobea10 46 1458  8,6981
224AsDawnBreaks 46 1458  8,6691
225AIDA64 46 1458  8,6581

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beta_helix's picture
User offline. Last seen 3 days 6 hours ago. Offline
Joined: 05/09/2008
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Good practice for CASP 10

This puzzle is actually a CASP 9 target (T0552), which some of you might recognize from previous Foldit puzzles. (The results from previous puzzles finally led us to implementing the new cutpoints).

The native has been released, but it was solved using NMR and the ensemble of models has a lot of variation (as you can see below, this is WITH the termini trimmed):

NMR ensemble of 2L3B: First 10 models in NMR ensemble for 2L3BNMR ensemble of 2L3B: First 10 models in NMR ensemble for 2L3B

You can obviously examine the native all you want (and for fairness we are posting it here in the puzzle comments: http://www.rcsb.org/pdb/explore/explore.do?structureId=2l3b) but the goal of this puzzle is to help us all prepare for CASP 10, which starts in early May!

Clearly for CASP, there will be no natives, so we want to find out now if the current Alignment Tool is sufficient to perform well on the Template-Based targets.

WE KNOW THAT YOU WANT A SCISSOR TOOL TO PUT IN YOUR OWN CUTPOINTS :-) That will be added soon, but we want to make sure that the current cutpoint system does not have any major bugs.

Although you can just thread the starting alignment and massage/fold the protein to a decent conformation, we believe that initially moving the alignment around can result in a better starting model (making it easier to get close to the native). Obviously, this is what we want to find out... so please let us know!

Thank you and happy threading!

spmm's picture
User offline. Last seen 8 weeks 2 days ago. Offline
Joined: 08/05/2010
Groups: Void Crushers
puzzle 369

would seem to be the earlier puzzle referred to in the text above. High scores there were 11062.xxx

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