Literature DB >> 3386752

Crystal structure of 15-mer DNA duplex containing unpaired bases.

M Miller1, R W Harrison, A Wlodawer, E Appella, J L Sussman.   

Abstract

Errors during DNA replication or repair can lead to the presence of unpaired or inserted bases in the double helix, as well as to mismatched base pairs. So far only structures of the latter type have been characterized by X-ray crystallography. We report here a 3-A crystal structure of DNA 15-mer d(CGCGAAATTTACGCG), which forms a duplex with two unpaired adenine residues looped outside the B-type helix. This arrangement is in disagreement with the nuclear magnetic resonance spectroscopy results for the same 15-mer in solution, indicating polymorphic nature of the structure adopted by this sequence.

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Year:  1988        PMID： 3386752     DOI： 10.1038/334085a0

Source DB:  PubMed          Journal:  Nature        ISSN： 0028-0836            Impact factor:   49.962


  13 in total

1.  Abasic sites in duplex DNA: molecular modeling of sequence-dependent effects on conformation.

Authors:  L Ayadi; C Coulombeau; R Lavery
Journal:  Biophys J       Date:  1999-12       Impact factor: 4.033

2.  Conformations of an adenine bulge in a DNA octamer and its influence on DNA structure from molecular dynamics simulations.

Authors:  M Feig; M Zacharias; B M Pettitt
Journal:  Biophys J       Date:  2001-07       Impact factor: 4.033

3.  Methyl-directed repair of frameshift heteroduplexes in cell extracts from Escherichia coli.

Authors:  B A Learn; R H Grafstrom
Journal:  J Bacteriol       Date:  1989-12       Impact factor: 3.490

4.  Direct repeats at nuclear matrix-associated DNA regions and their putative control function in the replicating eukaryotic genome.

Authors:  R J Opstelten; J M Clement; F Wanka
Journal:  Chromosoma       Date:  1989-12       Impact factor: 4.316

5.  Automated de novo prediction of native-like RNA tertiary structures.

Authors:  Rhiju Das; David Baker
Journal:  Proc Natl Acad Sci U S A       Date:  2007-08-28       Impact factor: 11.205

6.  Carcinogen-induced frameshift mutagenesis in repetitive sequences.

Authors:  I B Lambert; R L Napolitano; R P Fuchs
Journal:  Proc Natl Acad Sci U S A       Date:  1992-02-15       Impact factor: 11.205

7.  Modeling large RNAs and ribonucleoprotein particles using molecular mechanics techniques.

Authors:  A Malhotra; R K Tan; S C Harvey
Journal:  Biophys J       Date:  1994-06       Impact factor: 4.033

8.  Frameshift errors initiated by nucleotide misincorporation.

Authors:  K Bebenek; T A Kunkel
Journal:  Proc Natl Acad Sci U S A       Date:  1990-07       Impact factor: 11.205

9.  Analysis of the stability of looped-out and stacked-in conformations of an adenine bulge in DNA using a continuum model for solvent and ions.

Authors:  M Zacharias; H Sklenar
Journal:  Biophys J       Date:  1997-12       Impact factor: 4.033

10.  Conformational analysis of DNA repair intermediates by time-resolved fluorescence spectroscopy.

Authors:  Su Lin; David P Horning; Jack W Szostak; John C Chaput
Journal:  J Phys Chem A       Date:  2009-09-03       Impact factor: 2.781
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