puzzle picture
353: CASP9 Refinement Puzzle 10
Status: Closed


201pwan8037 51 1399  8,3981
202deus911 51 1399  8,3881
203jfkiser 51 1399  8,3881
204Cerzax 51 1399  8,3791
205Derivation 51 1399  8,3711
206D-evo 51 1399  8,3661
207eloiamb 51 1399  8,3631
208torbenh3 51 1399  8,3471
209Bluefire526 51 1399  8,3461
210jamh2oaddict 51 1399  8,3011
211Bayru 51 1399  8,2951
212jbehren 51 1399  8,2891
213Usopp 51 1399 Russian team8,2471
214LordSqueak 51 1399  8,1791
215Danfilms 51 1399  8,1651
216xenosol 51 1399  8,1041
217doctorME 51 1399  8,0931
218DimitriM 51 1399 SETI.Germany8,0461
219xabxs 51 1399  7,9741
220foob77 51 1399  7,9721
221oakwhiz 51 1399  7,9461
222Mrwoodchuck 51 1399  7,8551
223prot-bustr 51 1399 Anthropic Dreams7,8541
224georgesimeo 51 1399  7,8461
225nomine 51 1399  7,8311

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beta_helix's picture
User offline. Last seen 1 week 4 days ago. Offline
Joined: 05/09/2008
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This one will not be easy!

So this last CASP9 refinement target will not be easy.
The CASP9 organizers have told us that the best submitted model for this target had a GDT_TS of 56 which is quite low (a score of 100 is a perfect match to the native).

This means that you will need to heavily refine the starting model, especially in the regions that they mention (residues 10, 20 and 50) shown in note mode.

To make this even harder, the starting model they have selected is the Rosetta model submitted by our human group in the Baker Lab, which is trapped in a local minimum and highly minimized (essentially wiggled to death) so it will be very difficult to improve the score unless you get very close to the native state.

This is why we had to bring back the conditions for this one. It is in your best interest to focus on the regions with conditions immediately from the start (as opposed to wiggling/shaking the starting model) so that your starting very best score will be as low as possible.
This way, hopefully once you've made enough improvements on the 3 regions with conditions you will be able to beat the score of the starting puzzle.

Because we realize how much of a challenge this is, we will also post another version of this puzzle without conditions that will hopefully be useful.

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Developed by: UW Center for Game Science, UW Institute for Protein Design, Northeastern University, Vanderbilt University Meiler Lab, UC Davis
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