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Solution conformation of a bulged adenosine base in an RNA duplex by relaxation matrix refinement.

Abstract：

:Bulges are common structural motifs in RNA secondary structure and are thought to play important roles in RNA-protein and RNA-drug interactions. Adenosine bases are the most commonly occurring unpaired base in double helical RNA secondary structures. The solution conformation and dynamics of a 25-nucleotide RNA duplex containing an unpaired adenosine, r(GGCAGAGUGCCGC): r(GCGGCACCUGCC) have been studied by NMR spectroscopy and MORASS iterative relaxation matrix structural refinement. The results show that the bulged adenosine residue stacks into the RNA duplex with little perturbation around the bulged region. Most of the bases in the RNA duplex adopt C(3)'-endo conformation, exhibiting the N-type sugar pucker as found in the A form helices. The sugars of the bulged residue and the 5' flanking residue to it are found to exhibit C(2)'-endo conformation. None of the residues are in syn conformation.

journal_name

J Mol Biol

journal_title

Journal of molecular biology

authors

Thiviyanathan V,Guliaev AB,Leontis NB,Gorenstein DG

doi

10.1006/jmbi.2000.3931

keywords:

subject

Has Abstract

pub_date

2000-07-28 00:00:00

pages

1143-54

issue

5

eissn

0022-2836

issn

1089-8638

pii

S0022283600939317

journal_volume

300

pub_type

杂志文章

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