Unique structural features of interconverting monomeric and dimeric G-quadruplexes adopted by a sequence from intron of N-myc gene

Marko Trajkovski, Mateus Webba da Silva, Janez Plavec

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Abstract

Multidimensional heteronuclear NMR study has demonstrated that a guanine-rich DNA oligonucleotide originating from N-myc gene folds into G-quadruplex structures in the presence of K+, NH4+ and Na+ ions. A monomeric G-quadruplex formed in K+ ion containing solution exhibits three G- quartets and flexible propeller-type loops. The 3D structure with three single nucleotide loops represents a missing element in structures of parallel G-quadruplexes. The structural features together with the high temperature stability are suggestive of specific biological role of G-quadruplex formation within intron of N-myc gene. Increase in K+ ion and oligonucleotide concentrations resulted in transformation of monomeric G-quadruplex into a dimeric form. The dimeric G-quadruplex exhibits six stacked G- quartets, parallel strand orientations and propeller-type loops. A link between the third and the fourth G- quartets consists of two adenine residues that are flipped out to facilitate consecutive stacking of six G- quartets.
LanguageEnglish
JournalJOURNAL OF THE AMERICAN CHEMICAL SOCIETY
Volume134
DOIs
Publication statusPublished - 3 Feb 2012

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Introns
Genes
Propellers
Ions
Oligonucleotides
Guanine
Adenine
Nucleotides
Nuclear magnetic resonance
DNA
Temperature

Cite this

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abstract = "Multidimensional heteronuclear NMR study has demonstrated that a guanine-rich DNA oligonucleotide originating from N-myc gene folds into G-quadruplex structures in the presence of K+, NH4+ and Na+ ions. A monomeric G-quadruplex formed in K+ ion containing solution exhibits three G- quartets and flexible propeller-type loops. The 3D structure with three single nucleotide loops represents a missing element in structures of parallel G-quadruplexes. The structural features together with the high temperature stability are suggestive of specific biological role of G-quadruplex formation within intron of N-myc gene. Increase in K+ ion and oligonucleotide concentrations resulted in transformation of monomeric G-quadruplex into a dimeric form. The dimeric G-quadruplex exhibits six stacked G- quartets, parallel strand orientations and propeller-type loops. A link between the third and the fourth G- quartets consists of two adenine residues that are flipped out to facilitate consecutive stacking of six G- quartets.",
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AU - Plavec, Janez

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N2 - Multidimensional heteronuclear NMR study has demonstrated that a guanine-rich DNA oligonucleotide originating from N-myc gene folds into G-quadruplex structures in the presence of K+, NH4+ and Na+ ions. A monomeric G-quadruplex formed in K+ ion containing solution exhibits three G- quartets and flexible propeller-type loops. The 3D structure with three single nucleotide loops represents a missing element in structures of parallel G-quadruplexes. The structural features together with the high temperature stability are suggestive of specific biological role of G-quadruplex formation within intron of N-myc gene. Increase in K+ ion and oligonucleotide concentrations resulted in transformation of monomeric G-quadruplex into a dimeric form. The dimeric G-quadruplex exhibits six stacked G- quartets, parallel strand orientations and propeller-type loops. A link between the third and the fourth G- quartets consists of two adenine residues that are flipped out to facilitate consecutive stacking of six G- quartets.

AB - Multidimensional heteronuclear NMR study has demonstrated that a guanine-rich DNA oligonucleotide originating from N-myc gene folds into G-quadruplex structures in the presence of K+, NH4+ and Na+ ions. A monomeric G-quadruplex formed in K+ ion containing solution exhibits three G- quartets and flexible propeller-type loops. The 3D structure with three single nucleotide loops represents a missing element in structures of parallel G-quadruplexes. The structural features together with the high temperature stability are suggestive of specific biological role of G-quadruplex formation within intron of N-myc gene. Increase in K+ ion and oligonucleotide concentrations resulted in transformation of monomeric G-quadruplex into a dimeric form. The dimeric G-quadruplex exhibits six stacked G- quartets, parallel strand orientations and propeller-type loops. A link between the third and the fourth G- quartets consists of two adenine residues that are flipped out to facilitate consecutive stacking of six G- quartets.

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