2LED

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

Summary for 2LED

• Entry DOI: 10.2210/pdb2led/pdb
• Related: 2LEE
• NMR Information: BMRB: 17708
• Descriptor: DNA (5'-D(*TP*AP*GP*GP*GP*CP*GP*GP*GP*AP*GP*GP*GP*AP*GP*GP*GP*AP*A)-3') (1 entity in total)
• Functional Keywords: g-quadruplex, monomer-dimer equilibrium, n-myc, intron, dna
• Total number of polymer chains: 2
• Total formula weight: 12129.84

Authors

Trajkovski, M.,Plavec, J.,Webba da Silva, M. (deposition date: 2011-06-15, release date: 2012-03-14, Last modification date: 2024-05-15)

Primary citation

Trajkovski, M.,Webba da Silva, M.,Plavec, J.
Unique Structural Features of Interconverting Monomeric and Dimeric G-Quadruplexes Adopted by a Sequence from the Intron of the N-myc Gene.
J.Am.Chem.Soc., 134:4132-4141, 2012

PubMed Abstract: A multidimensional heteronuclear NMR study has demonstrated that a guanine-rich DNA oligonucleotide originating from the N-myc gene folds into G-quadruplex structures in the presence of K(+), NH(4)(+), 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 the specific biological role of G-quadruplex formation within the intron of the N-myc gene. An increase in K(+) ion and oligonucleotide concentrations resulted in transformation of the 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.

PubMed: 22303871
DOI: 10.1021/ja208483v

Experimental method

SOLUTION NMR