Critical Features of Fragment Libraries for Protein Structure Prediction.

ABSTRACT: The use of fragment libraries is a popular approach among protein structure prediction methods and has proven to substantially improve the quality of predicted structures. However, some vital aspects of a fragment library that influence the accuracy of modeling a native structure remain to be determined. This study investigates some of these features. Particularly, we analyze the effect of using secondary structure prediction guiding fragments selection, different fragments sizes and the effect of structural clustering of fragments within libraries. To have a clearer view of how these factors affect protein structure prediction, we isolated the process of model building by fragment assembly from some common limitations associated with prediction methods, e.g., imprecise energy functions an

SUBMITTER: Trevizani R 

PROVIDER: S-EPMC5235372 | biostudies-literature | 2017

REPOSITORIES: biostudies-literature