Association of DNA Quadruplexes through G:C:G:C Tetrads. Solution Structure ofd(GCGGTGGAT)

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Abstract

The structure formed by the DNA sequence d(GCGGTGGAT) in a 100 mM Na+ solution hasbeen determined using molecular dynamics calculations constrained by distance and dihedral restraintsderived from NMR experiments performed at isotopic natural abundance. The sequence folds into a dimerof dimers. Each symmetry-related half contains two parallel stranded G:G:G:G tetrads flanked by an A:Amismatch and by four-stranded G:C:G:C tetrads. Each of the two juxtaposed G:C:G:C tetrads is composedof alternating antiparallel strands from the two halves of the dimer. For each single strand, a thymineintersperses a double chain reversal connecting the juxtaposed G:G:G:G tetrads. This architecture haspotential implications in genetic recombination. It suggests a pathway for oligomerization involvingassociation of quadruplex entities through GpC steps.
LanguageEnglish
JournalBiochemistry
Volume42
DOIs
Publication statusPublished - 19 Nov 2003

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G-Quadruplexes
Molecular Dynamics Simulation
Dimers
Genetic Recombination
Oligomerization
DNA sequences
DNA
Molecular dynamics
Nuclear magnetic resonance
Experiments

Cite this

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title = "Association of DNA Quadruplexes through G:C:G:C Tetrads. Solution Structure ofd(GCGGTGGAT)",
abstract = "The structure formed by the DNA sequence d(GCGGTGGAT) in a 100 mM Na+ solution hasbeen determined using molecular dynamics calculations constrained by distance and dihedral restraintsderived from NMR experiments performed at isotopic natural abundance. The sequence folds into a dimerof dimers. Each symmetry-related half contains two parallel stranded G:G:G:G tetrads flanked by an A:Amismatch and by four-stranded G:C:G:C tetrads. Each of the two juxtaposed G:C:G:C tetrads is composedof alternating antiparallel strands from the two halves of the dimer. For each single strand, a thymineintersperses a double chain reversal connecting the juxtaposed G:G:G:G tetrads. This architecture haspotential implications in genetic recombination. It suggests a pathway for oligomerization involvingassociation of quadruplex entities through GpC steps.",
author = "{Webba da Silva}, Mateus",
year = "2003",
month = "11",
day = "19",
doi = "10.1021/bi0355185",
language = "English",
volume = "42",
journal = "Biochemistry",
issn = "0006-2960",

}

TY - JOUR

T1 - Association of DNA Quadruplexes through G:C:G:C Tetrads. Solution Structure ofd(GCGGTGGAT)

AU - Webba da Silva, Mateus

PY - 2003/11/19

Y1 - 2003/11/19

N2 - The structure formed by the DNA sequence d(GCGGTGGAT) in a 100 mM Na+ solution hasbeen determined using molecular dynamics calculations constrained by distance and dihedral restraintsderived from NMR experiments performed at isotopic natural abundance. The sequence folds into a dimerof dimers. Each symmetry-related half contains two parallel stranded G:G:G:G tetrads flanked by an A:Amismatch and by four-stranded G:C:G:C tetrads. Each of the two juxtaposed G:C:G:C tetrads is composedof alternating antiparallel strands from the two halves of the dimer. For each single strand, a thymineintersperses a double chain reversal connecting the juxtaposed G:G:G:G tetrads. This architecture haspotential implications in genetic recombination. It suggests a pathway for oligomerization involvingassociation of quadruplex entities through GpC steps.

AB - The structure formed by the DNA sequence d(GCGGTGGAT) in a 100 mM Na+ solution hasbeen determined using molecular dynamics calculations constrained by distance and dihedral restraintsderived from NMR experiments performed at isotopic natural abundance. The sequence folds into a dimerof dimers. Each symmetry-related half contains two parallel stranded G:G:G:G tetrads flanked by an A:Amismatch and by four-stranded G:C:G:C tetrads. Each of the two juxtaposed G:C:G:C tetrads is composedof alternating antiparallel strands from the two halves of the dimer. For each single strand, a thymineintersperses a double chain reversal connecting the juxtaposed G:G:G:G tetrads. This architecture haspotential implications in genetic recombination. It suggests a pathway for oligomerization involvingassociation of quadruplex entities through GpC steps.

U2 - 10.1021/bi0355185

DO - 10.1021/bi0355185

M3 - Article

VL - 42

JO - Biochemistry

T2 - Biochemistry

JF - Biochemistry

SN - 0006-2960

ER -