EVEREST: automatic identification and classification of protein domains in all protein sequences.

ABSTRACT:

Background

Proteins are comprised of one or several building blocks, known as domains. Such domains can be classified into families according to their evolutionary origin. Whereas sequencing technologies have advanced immensely in recent years, there are no matching computational methodologies for large-scale determination of protein domains and their boundaries. We provide and rigorously evaluate a novel set of domain families that is automatically generated from sequence data. Our domain family identification process, called EVEREST (EVolutionary Ensembles of REcurrent SegmenTs), begins by constructing a library of protein segments that emerge in an all vs. all pairwise sequence comparison. It then proceeds to cluster these segments into putative domain families. The selection of

SUBMITTER: Portugaly E 

PROVIDER: S-EPMC1533870 | biostudies-literature | 2006 Jun

REPOSITORIES: biostudies-literature