Layla Hirsh

TL;DR: A significant comparison to the structural classification database that led to the creation of 825 new families based on their set of uncharacterized families (EUFs) was carried out and Pfam entries were connected to the Sequence Ontology (SO) through mapping of the Pfam type definitions to SO terms.

TL;DR: A new version of RepeatsDB is provided with an improved classification schema including high quality annotations for ∼5400 protein structures and a new classification level has been introduced on top of the existing scheme as an independent layer for sequence similarity relationships at 40%, 60% and 90% identity.

TL;DR: The major conceptual change compared to the previous version is the hierarchical classification combining top levels based solely on structural similarity with two new levels requiring sequence similarity and describing repeat motifs in collaboration with Pfam.

TL;DR: This work classified the BHR proteins, compared structures, sequences of repeat motifs, functions and distribution across the major taxonomic kingdoms of life and within organisms, and identified six different BHR folds in tandem repeat proteins of Class III (elongated structures) and one BHR fold (up-and-down β-barrel) in Class IV ("closed" structures).

TL;DR: ReUPred is a novel method for the fast automatic prediction of repeat units and repeat classification using an extensive Structure Repeat Unit Library (SRUL) derived from RepeatsDB that outperforms two recent state-of-the-art methods for the repeat unit identification problem.