Advance Search              Latest Recources





















Showing search results (1–2 of 2):

  1. NCIR (View Publication)
    Full Name of the Resource : Non-Canonical Interactions in RNA
    Resource Category : Databases -> RNA -> RNA Sequence, Structure and Functions

    Brief Description : The known occurrences of non-canonical base-base interactions in RNA are tabulated in the NCIR (http://prion.bchs.uh.edu/bp_type/) database. Currently, there are over 1700 entries including those from the crystal and NMR structures of RNAs published in the year 2003/2004. The database summarizes the important structural properties of these interactions such as the sequence context, the sugar pucker, glycosidic conformation, melting temperature, chemical shift and free energy, when the information is available. The recent nomenclature proposed by Leontis and Westhof (1) has been incorporated into the database based on the three interacting edges: Watson-Crick (WC), Hoogsteen (HG), sugar edge (SE). To date, 46 different base pairs connected by at least two hydrogen bonds have been observed. Additionally, base pairs connected by single and bifurcated hydrogen bonds are also observed. Higher order base-base interactions including base triples, quadruples and quintuples have also been categorized. Frequently occurring non-canonical base pairs are the GA trans SE/HG, AU trans HG/WC, GA cis WC/WC, UU cis WC/SE and the GU and the AC cis wobble pairs. The most common base triple is an AGC trans SE/SE cis WC/WC interaction, often stabilizing long range tertiary interaction in RNA. A recent addition to the entries includes RNA motif information for the associated base-base interactions.
    Subject Area : Non-canonical base-base Interactions in RNA


    Institute/s :
    Department of Biology and Biochemistry, University of Houston, 369 Science and Research Building 2, Houston, USA.
    Address of Institute/s :
    Department of Biology and Biochemistry, University of Houston, 369 Science and Research Building 2, Houston, TX 77204-5001, USA.
    Country : United States

    Associated Institutes :

    • Department of Biology and Biochemistry, University of Houston, 369 Science and Research Building 2, Houston, TX 77204-5001, USA

    Associated Country : USA


    Authors/Contributors : Fox, G.E.
    Contact Email : fox@uh.edu
    Year : 2001
    Language : English

    Keywords : Animals; Base Pairing; Conserved Sequence; Databases, Nucleic Acid; Hydrogen Bonding; Information Storage and Retrieval; Internet; Nucleic Acid Conformation; RNA / chemistry


  2. NCIR (View Publication)
    Full Name of the Resource : Non-Canonical Interactions in RNA
    Resource Category : Databases -> Structure Databases -> Nucleic acid structure

    Brief Description : The known occurrences of non-canonical base-base interactions in RNA are tabulated in the NCIR (http://prion.bchs.uh.edu/bp_type/) database. Currently, there are over 1700 entries including those from the crystal and NMR structures of RNAs published in the year 2003/2004. The database summarizes the important structural properties of these interactions such as the sequence context, the sugar pucker, glycosidic conformation, melting temperature, chemical shift and free energy, when the information is available. The recent nomenclature proposed by Leontis and Westhof (1) has been incorporated into the database based on the three interacting edges: Watson-Crick (WC), Hoogsteen (HG), sugar edge (SE). To date, 46 different base pairs connected by at least two hydrogen bonds have been observed. Additionally, base pairs connected by single and bifurcated hydrogen bonds are also observed. Higher order base-base interactions including base triples, quadruples and quintuples have also been categorized. Frequently occurring non-canonical base pairs are the GA trans SE/HG, AU trans HG/WC, GA cis WC/WC, UU cis WC/SE and the GU and the AC cis wobble pairs. The most common base triple is an AGC trans SE/SE cis WC/WC interaction, often stabilizing long range tertiary interaction in RNA. A recent addition to the entries includes RNA motif information for the associated base-base interactions.
    Subject Area : Non-canonical base-base interactions in RNA


    Institute/s :
    Dept. of Biology and Biochemistry, University of Houston, Houston, TX 77204, USA
    Address of Institute/s :
    Dept. of Biology and Biochemistry, University of Houston, Houston, TX 77204, USA
    Country : United States

    Associated Institutes :

    • Department of Biology and Biochemistry, University of Houston, 369 Science and Research Building 2, Houston, TX 77204-5001, USA

    Associated Country : USA


    Authors/Contributors : George E. Fox
    Contact Email : fox@uh.edu
    Year : 2001
    Language : English

    Keywords : Animals; Base Pairing; Conserved Sequence; Databases, Nucleic Acid; Hydrogen Bonding; Information Storage and Retrieval; Internet; Nucleic Acid Conformation; RNA / chemistry