title: CDD: conserved domains and protein three-dimensional structure.
abstract: CDD, the Conserved Domain Database, is part of NCBI's Entrez query and retrieval system and is also accessible via http://www.ncbi.nlm.nih.gov/Structure/cdd/cdd.shtml. CDD provides annotation of protein sequences with the location of conserved domain footprints and functional sites inferred from these footprints. Pre-computed annotation is available via Entrez, and interactive search services accept single protein or nucleotide queries, as well as batch submissions of protein query sequences, utilizing RPS-BLAST to rapidly identify putative matches. CDD incorporates several protein domain and full-length protein model collections, and maintains an active curation effort that aims at providing fine grained classifications for major and well-characterized protein domain families, as supported by available protein three-dimensional (3D) structure and the published literature. To this date, the majority of protein 3D structures are represented by models tracked by CDD, and CDD curators are characterizing novel families that emerge from protein structure determination efforts.
authors.affiliation: National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bldg. 38 A, Room 8N805, 8600 Rockville Pike, Bethesda, MD 20894, USA. bauer@ncbi.nlm.nih.gov
authors.forename: Aron
authors.initials: A
authors.lastname: Marchler-Bauer
authors.forename: Chanjuan
authors.initials: C
authors.lastname: Zheng
authors.forename: Farideh
authors.initials: F
authors.lastname: Chitsaz
authors.forename: Myra K
authors.initials: MK
authors.lastname: Derbyshire
authors.forename: Lewis Y
authors.initials: LY
authors.lastname: Geer
authors.forename: Renata C
authors.initials: RC
authors.lastname: Geer
authors.forename: Noreen R
authors.initials: NR
authors.lastname: Gonzales
authors.forename: Marc
authors.initials: M
authors.lastname: Gwadz
authors.forename: David I
authors.initials: DI
authors.lastname: Hurwitz
authors.forename: Christopher J
authors.initials: CJ
authors.lastname: Lanczycki
authors.forename: Fu
authors.initials: F
authors.lastname: Lu
authors.forename: Shennan
authors.initials: S
authors.lastname: Lu
authors.forename: Gabriele H
authors.initials: GH
authors.lastname: Marchler
authors.forename: James S
authors.initials: JS
authors.lastname: Song
authors.forename: Narmada
authors.initials: N
authors.lastname: Thanki
authors.forename: Roxanne A
authors.initials: RA
authors.lastname: Yamashita
authors.forename: Dachuan
authors.initials: D
authors.lastname: Zhang
authors.forename: Stephen H
authors.initials: SH
authors.lastname: Bryant
mesh_terms: D000595:Amino Acid Sequence; D017124:Conserved Sequence; D030562:Databases, Protein; D020407:Internet; D008958:Models, Molecular; D058977:Molecular Sequence Annotation; D011487:Protein Conformation; D017434:Protein Structure, Tertiary; D011506:Proteins / Q000737:chemistry / Q000145:classification / Q000235:genetics; D020539:Sequence Analysis, Protein
chemical_list: D011506:Proteins