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Where are we in protein structure prediction today? A report from Template Free Modeling (FM) in CASP10

Friday, November 08, 2013 — Poster Session IV

2:00 p.m. – 4:00 p.m.

FAES Academic Center (Upper-Level Terrace)




  • C.H. Tai
  • H Bai
  • T.J. Taylor
  • B.K. Lee


We present the assessment of predictions for Template Free Modeling in CASP10. Models were first clustered so that very similar ones were represented by the highest GDT_TS score model in the cluster. The representatives were then compared with targets using GDT_TS, QCS, and 3 additional superposition-independent score functions newly developed for CASP10. For each target, top 15 representatives from each score were pooled to form the Top15Union set. All models in this set were visually inspected by four of us independently using the new plugin, EvalScore, which we developed with the UCSF Chimera group. Best models were selected for each target and groups were ranked by the number of targets for which a group’s model was selected as one of the best models. Keasar group submitted the most, 4 out of 19, best models. Among the prediction servers, QUARK from Zhang’s group produced most best models (3 out of 19 targets). As observed in CASP9, many successful groups were not true “template-free” modelers in that they modified server models to only a modest extent in most cases. On the other hand, the performance of independent predictors was inconsistent and no group dominated the FM category.

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