MersV1, Main, Exploration, bibRecord, 003599

An intramolecular quadruplex of (GGA)4 triplet repeat DNA with a G:G:G:G tetrad and a G(:A):G(:A):G(:A):G heptad, and its dimeric interaction

Identifieur interne : 003599 ( Main/Exploration ); précédent : 003598; suivant : 003600

An intramolecular quadruplex of (GGA)4 triplet repeat DNA with a G:G:G:G tetrad and a G(:A):G(:A):G(:A):G heptad, and its dimeric interaction

Auteurs : Akimasa Matsugami [Japon] ; Kiyoshi Ouhashi [Japon] ; Mayumi Kanagawa [Japon] ; Hui Liu [Japon] ; Sakura Kanagawa [Japon] ; Seiichi Uesugi [Japon] ; Masato Katahira [Japon]

Source :

Journal of Molecular Biology [ 0022-2836 ] ; 2001.

RBID : ISTEX:F24D09F5DF59A6A147DE49A15DCBF4FD8C82F86F

English descriptors

KwdEn :
- DQF-COSY, DSS, HSQC, NMR, NOESY, TOCSY, d(GGA), ppm, quadruplex, rmsd, structure, triplet repeat.
Teeft :
- Acids symp, Amino, Amino group, Amino protons, Arrowhead motifs, Biol, Chemical shifts, Complementary strand, Conformation, Constraint, Dihedral, Dihedral angle constraints, Dimer, Dimer structure, Distance constraints, Double quantum, Duplex, Endo, H2hh, H5hh, Heptad, Heptad figure, Heptad plane, Heptad planes, Hetcor spectrum, Imino, Imino protons, Interstrand, Intramolecular, Intramolecular quadruplex, Main chain, Monomer, Multimeric form, Noesy, Noesy spectrum, Nucl, Nucleic acids, Parallel quadruplex, Physiological monovalent cation conditions, Planarity constraints, Proton, Purine strand, Quadruplex, Quadruplex structure, Quadruplexes, Representative structure, Residue, Salt conditions, Sheared, Sodium phosphate, Solution structure, Stereo view, Strand stoichiometry, Strong noes, Structural statistics, Tetrad, Torsion angles, Trinucleotide, Trinucleotide loop, Triplet, Upper monomer.

Abstract

Abstract: The structure of d(GGAGGAGGAGGA) containing four tandem repeats of a GGA triplet sequence has been determined under physiological K+ conditions. d(GGAGGAGGAGGA) folds into an intramolecular quadruplex composed of a G:G:G:G tetrad and a G(:A):G(:A):G(:A):G heptad. Four G-G segments of d(GGAGGAGGAGGA) are aligned parallel with each other due to six successive turns of the main chain at each of the GGA and GAGG segments. Two quadruplexes form a dimer stabilized through a stacking interaction between the heptads of the two quadruplexes. Comparison of the structure of d(GGAGGAGGAGGA) with the reported structure of d(GGAGGAN) (N=G or T) containing two tandem repeats of the GGA triplet revealed that although the two structures resemble each other to some extent, the extension of the repeats of the GGA triplet leads to distinct structural differences: intramolecular quadruplex for 12-mer versus intermolecular quadruplex for 7-mer; heptad versus hexad in the quadruplex; and three sheared G:A base-pairs versus two sheared G:A base-pairs plus one A:A base-pair per quadruplex. It was also suggested that d(GGAGGAGGAGGA) forms a similar quadruplex under low salt concentration conditions. This is in contrast to the case of d(GGAGGAN) (N=G or T), which forms a duplex under low salt concentration conditions. On the basis of these results, the structure of naturally occurring GGA triplet repeat DNA is discussed.

Url:

https://api.istex.fr/ark:/67375/6H6-PXCHX5P0-N/fulltext.pdf

DOI: 10.1006/jmbi.2001.5047

Affiliations:

Japon

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Le document en format XML

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<author><name sortKey="Kanagawa, Mayumi" sort="Kanagawa, Mayumi" uniqKey="Kanagawa M" first="Mayumi" last="Kanagawa">Mayumi Kanagawa</name>
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<author><name sortKey="Kanagawa, Sakura" sort="Kanagawa, Sakura" uniqKey="Kanagawa S" first="Sakura" last="Kanagawa">Sakura Kanagawa</name>
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<term>HSQC</term>
<term>NMR</term>
<term>NOESY</term>
<term>TOCSY</term>
<term>d(GGA)</term>
<term>ppm</term>
<term>quadruplex</term>
<term>rmsd</term>
<term>structure</term>
<term>triplet repeat</term>
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<keywords scheme="Teeft" xml:lang="en"><term>Acids symp</term>
<term>Amino</term>
<term>Amino group</term>
<term>Amino protons</term>
<term>Arrowhead motifs</term>
<term>Biol</term>
<term>Chemical shifts</term>
<term>Complementary strand</term>
<term>Conformation</term>
<term>Constraint</term>
<term>Dihedral</term>
<term>Dihedral angle constraints</term>
<term>Dimer</term>
<term>Dimer structure</term>
<term>Distance constraints</term>
<term>Double quantum</term>
<term>Duplex</term>
<term>Endo</term>
<term>H2hh</term>
<term>H5hh</term>
<term>Heptad</term>
<term>Heptad figure</term>
<term>Heptad plane</term>
<term>Heptad planes</term>
<term>Hetcor spectrum</term>
<term>Imino</term>
<term>Imino protons</term>
<term>Interstrand</term>
<term>Intramolecular</term>
<term>Intramolecular quadruplex</term>
<term>Main chain</term>
<term>Monomer</term>
<term>Multimeric form</term>
<term>Noesy</term>
<term>Noesy spectrum</term>
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<term>Nucleic acids</term>
<term>Parallel quadruplex</term>
<term>Physiological monovalent cation conditions</term>
<term>Planarity constraints</term>
<term>Proton</term>
<term>Purine strand</term>
<term>Quadruplex</term>
<term>Quadruplex structure</term>
<term>Quadruplexes</term>
<term>Representative structure</term>
<term>Residue</term>
<term>Salt conditions</term>
<term>Sheared</term>
<term>Sodium phosphate</term>
<term>Solution structure</term>
<term>Stereo view</term>
<term>Strand stoichiometry</term>
<term>Strong noes</term>
<term>Structural statistics</term>
<term>Tetrad</term>
<term>Torsion angles</term>
<term>Trinucleotide</term>
<term>Trinucleotide loop</term>
<term>Triplet</term>
<term>Upper monomer</term>
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<front><div type="abstract" xml:lang="en">Abstract: The structure of d(GGAGGAGGAGGA) containing four tandem repeats of a GGA triplet sequence has been determined under physiological K+ conditions. d(GGAGGAGGAGGA) folds into an intramolecular quadruplex composed of a G:G:G:G tetrad and a G(:A):G(:A):G(:A):G heptad. Four G-G segments of d(GGAGGAGGAGGA) are aligned parallel with each other due to six successive turns of the main chain at each of the GGA and GAGG segments. Two quadruplexes form a dimer stabilized through a stacking interaction between the heptads of the two quadruplexes. Comparison of the structure of d(GGAGGAGGAGGA) with the reported structure of d(GGAGGAN) (N=G or T) containing two tandem repeats of the GGA triplet revealed that although the two structures resemble each other to some extent, the extension of the repeats of the GGA triplet leads to distinct structural differences: intramolecular quadruplex for 12-mer versus intermolecular quadruplex for 7-mer; heptad versus hexad in the quadruplex; and three sheared G:A base-pairs versus two sheared G:A base-pairs plus one A:A base-pair per quadruplex. It was also suggested that d(GGAGGAGGAGGA) forms a similar quadruplex under low salt concentration conditions. This is in contrast to the case of d(GGAGGAN) (N=G or T), which forms a duplex under low salt concentration conditions. On the basis of these results, the structure of naturally occurring GGA triplet repeat DNA is discussed.</div>
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<name sortKey="Uesugi, Seiichi" sort="Uesugi, Seiichi" uniqKey="Uesugi S" first="Seiichi" last="Uesugi">Seiichi Uesugi</name>
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An intramolecular quadruplex of (GGA)4 triplet repeat DNA with a G:G:G:G tetrad and a G(:A):G(:A):G(:A):G heptad, and its dimeric interaction

An intramolecular quadruplex of (GGA)4 triplet repeat DNA with a G:G:G:G tetrad and a G(:A):G(:A):G(:A):G heptad, and its dimeric interaction

Source :

English descriptors

Abstract

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