Automatic methods for macromolecular structure prediction (fold recognition, de novo folding
and docking programs) produce large sets of alternative models. These large model sets …

Background Protein tertiary structure prediction is a fundamental problem in computational
biology and identifying the most native-like model from a set of predicted models is a key …

We applied a new multi‐step protocol to predict the structures of all targets during CASP5,
regardless of their potential category. 1) We used diverse fold‐recognition (FR) methods to …

Most successful structure prediction strategies use knowledge-based functions for global
optimization, in spite of their intrinsic limited potential to create new folds, while physics …

Scoring functions are widely used in the final step of model selection in protein structure
prediction. This is of interest both for comparative modeling targets, where it is important to …

Motivation: Homology detection enables grouping proteins into families and prediction of
their structure and function. The range of application of homology-based predictions can be …

Protein structure refinement is an important but unsolved problem; it must be solved if we are
to predict biological function that is very sensitive to structural details. Specifically, critical …

Advances in structural genomics and protein structure prediction require the design of
automatic, fast, objective, and well benchmarked methods capable of comparing and …

The quality of model structures generated by contemporary protein structure prediction
methods strongly depends on the degree of similarity between the target and available …

Abstract In CASP5, the BioInfo. PL group has used the structure prediction Meta Server and
the associated newly developed flexible meta‐predictor, called 3D‐Jury, as the main …