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Related Experiment Videos

[Structure of d(GT)n repeating sequences with parallel and antiparallel chains].

O F Borisova, A K Shchelkina, O K Mamaeva

    Molekuliarnaia Biologiia
    |March 1, 1992
    PubMed
    Summary
    This summary is machine-generated.

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    Oligonucleotides anti[d(GT)] and par[d(GT)] can form hairpin and four-stranded structures. These structures, particularly the four-stranded parallel G-residue layers, may explain the biological functions of (GT)n sequences in genomes.

    Area of Science:

    • Molecular Biology
    • Biophysics

    Context:

    • Oligonucleotides with repeating sequences, such as (GT)n, are crucial in genomic research.
    • Understanding the structural dynamics of these sequences is key to elucidating their biological roles.

    Purpose:

    • To investigate the structural properties and thermodynamic parameters of two specific oligonucleotides: 3'-d(GT)5pO(CH2)5Opd(GT)5-5' (anti[d(GT)]) and 3'-d(GT)5pO(CH2)6Opd(GT)5-3' (par[d(GT)]).
    • To explore the formation of hairpin and higher-order structures, including four-stranded aggregates, under varying temperature conditions.

    Summary:

    • Optical methods including thermal denaturation and circular dichroism, alongside fluorescence spectroscopy with intercalating dyes (ethidium bromide, acridine orange), were employed.
    • Both anti[d(GT)] and par[d(GT)] exhibit similar thermodynamic parameters (ΔH = -15 kcal/mol, ΔS = -50 cal/mol·deg) and can form parallel and antiparallel hairpin structures at room temperature.

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  • At low temperatures (3-10°C), these oligonucleotides self-assemble into parallel four-stranded structures characterized by alternating layers of guanine residues and bulged thymine residues.

    • Impact:

    • The study reveals the conformational flexibility of (GT)n sequences, highlighting the potential biological significance of their ability to form complex four-stranded structures.
    • Findings suggest a link between the unique structural possibilities of (GT)n sequences, specifically their four-stranded parallel conformations with bulged thymines, and their genomic functions compared to (GC)n and (G)n sequences.