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      CDD: conserved domains and protein three-dimensional structure

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          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.

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          Author and article information

          Journal
          Nucleic Acids Res
          Nucleic Acids Res
          nar
          nar
          Nucleic Acids Research
          Oxford University Press
          0305-1048
          1362-4962
          January 2013
          28 November 2012
          28 November 2012
          : 41
          : Database issue , Database issue
          : D348-D352
          Affiliations
          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
          Author notes
          *To whom correspondence should be addressed. Tel: +1 301 435 4919; Fax: +1 301 435 7793; Email: bauer@ 123456ncbi.nlm.nih.gov
          Article
          gks1243
          10.1093/nar/gks1243
          3531192
          23197659
          ab98658e-96ee-4f4c-804e-b40cfcf480b6
          Published by Oxford University Press 2012.

          This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( http://creativecommons.org/licenses/by-nc/3.0/), which permits non-commercial reuse, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com.

          History
          : 10 October 2012
          : 31 October 2012
          : 1 November 2012
          Page count
          Pages: 5
          Categories
          Articles

          Genetics
          Genetics

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