1N96

DIMERIC SOLUTION STRUCTURE OF THE CYCLIC OCTAMER CD(CGCTCATT)

Summary for 1N96

• Entry DOI: 10.2210/pdb1n96/pdb
• Related: 1eu2 1eu6
• NMR Information: BMRB: 5681
• Descriptor: CYCLIC OLIGONUCLEOTIDE D(CGCTCATT) (1 entity in total)
• Functional Keywords: quadruplex, four-stranded dna, unusual dna, bi-loop, dna
• Total number of polymer chains: 2
• Total formula weight: 4755.16

Authors

Escaja, N.,Gelpi, J.L.,Orozco, M.,Rico, M.,Pedroso, E.,Gonzalez, C. (deposition date: 2002-11-22, release date: 2003-05-13, Last modification date: 2024-05-22)

Primary citation

Escaja, N.,Gelpi, J.L.,Orozco, M.,Rico, M.,Pedroso, E.,Gonzalez, C.
Four-stranded DNA structure stabilized by a novel G:C:A:T tetrad.
J.Am.Chem.Soc., 125:5654-5662, 2003

PubMed Abstract: The solution structure of a cyclic oligonucleotide d has been determined by two-dimensional NMR spectroscopy and restrained molecular dynamics. Under the appropriate experimental conditions, this molecule self-associates, forming a symmetric dimer stabilized by four intermolecular Watson-Crick base pairs. The resulting four-stranded structure consists of two G:C:A:T tetrads, formed by facing the minor groove side of the Watson-Crick base-pairs. Most probably, the association of the base-pairs is stabilized by coordinating a Na(+) cation. This is the first time that this novel G:C:A:T tetrad has been found in an oligonucleotide structure. This observation increases considerably the number of sequences that may adopt a four-stranded architecture. Overall, the three-dimensional structure is similar to those observed previously in other quadruplexes formed by minor groove alignment of Watson-Crick base pairs. This resemblance strongly suggests that we may be observing a general motif for DNA-DNA recognition.

PubMed: 12733903
DOI: 10.1021/ja0344157

Experimental method

SOLUTION NMR