The other 90% of the protein: assessment beyond the Calphas for CASP8 template-based and high-accuracy models.

ABSTRACT: For template-based modeling in the CASP8 Critical Assessment of Techniques for Protein Structure Prediction, this work develops and applies six new full-model metrics. They are designed to complement and add value to the traditional template-based assessment by the global distance test (GDT) and related scores (based on multiple superpositions of Calpha atoms between target structure and predictions labeled "Model 1"). The new metrics evaluate each predictor group on each target, using all atoms of their best model with above-average GDT. Two metrics evaluate how "protein-like" the predicted model is: the MolProbity score used for validating experimental structures, and a mainchain reality score using all-atom steric clashes, bond length and angle outliers, and backbone dihedrals. Four oth

SUBMITTER: Keedy DA 

PROVIDER: S-EPMC2877634 | biostudies-literature | 2009

REPOSITORIES: biostudies-literature