NCBI's Conserved Domain Database (CDD) aims at annotating biomolecular sequences with the location of evolutionarily conserved protein domain footprints, and functional sites inferred from such footprints. An archive of pre-computed domain annotation is maintained for proteins tracked by NCBI's Entrez database, and live search services are offered as well. CDD curation staff supplements a comprehensive collection of protein domain and protein family models, which have been imported from external providers, with representations of selected domain families that are curated in-house and organized into hierarchical classifications of functionally distinct families and sub-families. CDD also supports comparative analyses of protein families via conserved domain architectures, and a recent curation effort focuses on providing functional characterizations of distinct subfamily architectures using SPARCLE: Subfamily Protein Architecture Labeling Engine. CDD can be accessed at https://www.ncbi.nlm.nih.gov/Structure/cdd/cdd.shtml.
CDD/SPARCLE: functional classification of proteins via subfamily domain architectures
Aron Marchler-Bauer,Bo Yu,Lianyi Han,Jane He,C. Lanczycki,Shennan Lu,F. Chitsaz,M. K. Derbyshire,Renata C. Geer,Noreen R. Gonzales,M. Gwadz,David I. Hurwitz,Fu Lu,Gabriele H. Marchler,James S. Song,N. Thanki,Zhouxi Wang,R. Yamashita,Dachuan Zhang,Chanjuan Zheng,Lewis Y. Geer,S. Bryant
Published 2016 in Nucleic Acids Res.
ABSTRACT
PUBLICATION RECORD
- Publication year
2016
- Venue
Nucleic Acids Res.
- Publication date
2016-11-28
- Fields of study
Biology, Medicine, Computer Science
- Identifiers
- External record
- Source metadata
Semantic Scholar, PubMed
CITATION MAP
EXTRACTION MAP
CLAIMS
CONCEPTS
- conserved domain architectures
Patterns of conserved domains across proteins that CDD uses for comparative analysis of protein families.
Aliases: domain architectures
- conserved domain database (cdd)
An NCBI resource for annotating biomolecular sequences with conserved protein domain footprints and inferred functional sites.
Aliases: CDD
- hierarchical classifications
An organized classification scheme in which curated protein families are arranged into functionally distinct families and sub-families.
Aliases: hierarchical classification
- ncbi entrez database
NCBI's sequence and record tracking system that supplies the proteins referenced for archived domain annotation in CDD.
Aliases: Entrez
- protein domain models
Imported or curated models representing protein domains and protein families used by CDD for annotation and classification.
Aliases: domain models, family models
- sparcle
Subfamily Protein Architecture Labeling Engine, a curation and labeling system for protein subfamily architectures.
Aliases: Subfamily Protein Architecture Labeling Engine
- subfamily domain architectures
The specific arrangements of conserved domains that define or distinguish protein subfamilies in the CDD/SPARCLE framework.
Aliases: subfamily architectures
REFERENCES
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