Format

Send to

Choose Destination
Nucleic Acids Res. 2017 Jan 4;45(D1):D296-D302. doi: 10.1093/nar/gkw1137. Epub 2016 Nov 29.

ECOD: new developments in the evolutionary classification of domains.

Author information

1
Department of Biophysics, University of Texas Southwestern Medical Center, Dallas, TX 75390-9050, USA Richard.Schaeffer@UTSouthwestern.edu.
2
Department of Biophysics, University of Texas Southwestern Medical Center, Dallas, TX 75390-9050, USA.
3
Howard Hughes Medical Institute, University of Texas Southwestern Medical Center, Dallas, TX 75390-9050, USA.

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.

PMID:
27899594
PMCID:
PMC5210594
DOI:
10.1093/nar/gkw1137
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for Silverchair Information Systems Icon for PubMed Central
Loading ...
Support Center