Advance Search              Latest Recources





















Showing search results (1–1 of 1):

  1. CDD (View Publication)
    Full Name of the Resource : Conserved domain database, includes protein domains from Pfam, SMART, COG and KOG databases
    Resource Category : Databases -> Protein Sequence Databases -> Protein Domain Databases (Protein Classification)

    Brief Description : The Conserved Domain Database (CDD) is a compilation of multiple sequence alignments representing protein domains conserved in molecular evolution. It has been populated with alignment data from the public collections Pfam ( 1) and Smart ( 2), as well as with contributions from colleagues at NCBI. The current version of CDD (v1.53) contains 3551 such models. CDD alignments are linked to protein sequence and structure data in Entrez (3 ). The molecular structure viewer Cn3D (4 ) serves as a tool to interactively visualize alignments and three-dimensional structure, and to annotate three-dimensional residue coordinates with evolutionarily conserved features. CDD can be accessed on the world-wide-web at the URL http://www.ncbi.nlm.nih.gov/Structure/cdd/cdd.shtml. Protein query sequences may be compared against databases of position-specific score matrices (PSSMs) derived from alignments in CDD, using a service named CD-Search, which can be found at http://www.ncbi.nlm.nih.gov/Structure/cdd/wrpsb.cgi. CD-Search runs reverse position-specific BLAST (RPS-BLAST), a variant of the widely used PSI-BLAST algorithm ( 5). CD-Search is run by default for protein-protein queries submitted to NCBI's BLAST-service at http://www.ncbi.nlm.nih.gov/BLAST.
    Subject Area : Conserved Domain


    Institute/s :
    National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, USA
    Address of Institute/s :
    National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland 20894, USA
    Country : United States

    Associated Institutes :

    • 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

    Associated Country : USA


    Authors/Contributors : Marchler-Bauer, A
    Contact Email : bauer@ncbi.nlm.nih.gov
    Year : 2011
    Language : English

    Keywords : Amino Acid Sequence; Conserved Sequence; Databases, Protein; Models, Biological; Protein Structure, Tertiary; Proteins / classification; Sequence Analysis, Protein