Abstract
We present an overview of the ninth round of Critical Assessment of Protein Structure Prediction (CASP9) "Template free modeling" category (FM). Prediction models were evaluated using a combination of established structural and sequence comparison measures and a novel automated method designed to mimic manual inspection by capturing both global and local structural features. These scores were compared to those assigned manually over a diverse subset of target domains. Scores were combined to compare overall performance of participating groups and to estimate rank significance. Moreover, we discuss a few examples of free modeling targets to highlight the progress and bottlenecks of current prediction methods. Notably, a server prediction model for a single target (T0581) improved significantly over the closest structure template (44% GDT increase). This accomplishment represents the "winner" of the CASP9 FM category. A number of human expert groups submitted slight variations of this model, highlighting a trend for human experts to act as "meta predictors" by correctly selecting among models produced by the top-performing automated servers. The details of evaluation are available at.
Original language | English (US) |
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Pages (from-to) | 59-73 |
Number of pages | 15 |
Journal | Proteins: Structure, Function and Bioinformatics |
Volume | 79 |
Issue number | SUPPL. 10 |
DOIs | |
State | Published - 2011 |
Keywords
- Alignment quality
- CASP9
- Domain structure
- Protein-fold prediction
- Structure comparison
- ab-initio
ASJC Scopus subject areas
- Structural Biology
- Biochemistry
- Molecular Biology