title: ECOD: new developments in the evolutionary classification of domains.
abstract: Evolutionary Classification Of protein Domains (ECOD) (http://prodata.swmed.edu/ecod) comprehensively classifies protein with known spatial structures maintained by the Protein Data Bank (PDB) into evolutionary groups of protein domains. ECOD relies on a combination of automatic and manual weekly updates to achieve its high accuracy and coverage with a short update cycle. ECOD classifies the approximately 120 000 depositions of the PDB into more than 500 000 domains in ∼3400 homologous groups. We show the performance of the weekly update pipeline since the release of ECOD, describe improvements to the ECOD website and available search options, and discuss novel structures and homologous groups that have been classified in the recent updates. Finally, we discuss the future directions of ECOD and further improvements planned for the hierarchy and update process.
authors.affiliation: Department of Biophysics, University of Texas Southwestern Medical Center, Dallas, TX 75390-9050, USA Richard.Schaeffer@UTSouthwestern.edu.
authors.forename: R Dustin
authors.initials: RD
authors.lastname: Schaeffer
authors.affiliation: Department of Biophysics, University of Texas Southwestern Medical Center, Dallas, TX 75390-9050, USA.
authors.forename: Yuxing
authors.initials: Y
authors.lastname: Liao
authors.affiliation: Howard Hughes Medical Institute, University of Texas Southwestern Medical Center, Dallas, TX 75390-9050, USA.
authors.forename: Hua
authors.initials: H
authors.lastname: Cheng
authors.affiliation: Department of Biophysics, University of Texas Southwestern Medical Center, Dallas, TX 75390-9050, USA.|Howard Hughes Medical Institute, University of Texas Southwestern Medical Center, Dallas, TX 75390-9050, USA.
authors.forename: Nick V
authors.initials: NV
authors.lastname: Grishin
mesh_terms: D019295:Computational Biology / Q000379:methods; D030562:Databases, Protein; D019143:Evolution, Molecular; D008958:Models, Molecular; D011487:Protein Conformation; D000072417:Protein Domains; D011506:Proteins / Q000737:chemistry / Q000145:classification / Q000235:genetics
chemical_list: D011506:Proteins