ECOD: new developments in the evolutionary classification of domains.

R Dustin Schaeffer, Yuxing Liao, Hua Cheng, Nick V Grishin

Nucleic acids research 2017 Jan 04

filter terms:

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. © The Author(s) 2016. Published by Oxford University Press on behalf of Nucleic Acids Research.

Citation

R Dustin Schaeffer, Yuxing Liao, Hua Cheng, Nick V Grishin. ECOD: new developments in the evolutionary classification of domains. Nucleic acids research. 2017 Jan 04;45(D1):D296-D302