title: Processing and analysis of CASP3 protein structure predictions.
abstract: Livermore Prediction Center provides basic infrastructure for the CASP (Critical Assessment of Structure Prediction) experiments, including prediction processing and verification servers, a system of prediction evaluation tools, and interactive numerical and graphical displays. Here we outline the essentials of our approach, with discussion of the superposition procedures, definitions of basic measures, and descriptions of new methods developed to analyze predictions. Our primary focus is on the evaluation of three-dimensional models and secondary structure predictions. To put the results of the three prediction experiments held to date on the same footing, the latest CASP3 evaluation criteria were retrospectively applied to both CASP1 and CASP2 predictions. Finally, we give an overview of our website (http:/(/)PredictionCenter.llnl.gov), which makes the target structures, predictions, and the evaluation system accessible to the community.
authors.affiliation: Biology and Biotechnology Research Program, Lawrence Livermore National Laboratory, California 94550, USA.
authors.forename: A
authors.initials: A
authors.lastname: Zemla
authors.forename: C
authors.initials: C
authors.lastname: Venclovas
authors.forename: J
authors.initials: J
authors.lastname: Moult
authors.forename: K
authors.initials: K
authors.lastname: Fidelis
mesh_terms: D000595:Amino Acid Sequence; D004265:DNA Helicases / Q000737:chemistry; D004926:Escherichia coli / Q000201:enzymology; D005544:Forecasting; D020407:Internet; D008958:Models, Molecular; D008969:Molecular Sequence Data; D011487:Protein Conformation; D017433:Protein Structure, Secondary; D017434:Protein Structure, Tertiary; D011506:Proteins / Q000737:chemistry*; D016415:Sequence Alignment
chemical_list: D011506:Proteins; D004265:DNA Helicases