Literature DB >> 9546216

Structure of a stereoregular phosphorothioate DNA/RNA duplex.

M Bachelin1, G Hessler, G Kurz, J G Hacia, P B Dervan, H Kessler.   

Abstract

In this work, we present the first NMR solution structure of a DNA/RNA hybrid containing stereoregular Rp-phosphorothioate modifications of all DNA backbone linkages. The complex of the enzymatically synthesized phosphorothioate DNA octamer (all-Rp)-d(GCGTCAGG) and its complementary RNA r(CCUGACGC) was found to adopt an overall conformation within the A-form family. Most helical parameters and the sugar puckers of the DNA strand assume values intermediate between A- and B-form. The close structural similarity with the unmodified DNA/RNA hybrid of the same sequence may explain why both the natural and the sulfur-substituted complex can be recognized and digested by ribonuclease H.

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Year:  1998        PMID: 9546216     DOI: 10.1038/nsb0498-271

Source DB:  PubMed          Journal:  Nat Struct Biol        ISSN: 1072-8368


  16 in total

1.  NMR structure of the chimeric hybrid duplex r(gcaguggc).r(gcca)d(CTGC) comprising the tRNA-DNA junction formed during initiation of HIV-1 reverse transcription.

Authors:  T Szyperski; M Götte; M Billeter; E Perola; L Cellai; H Heumann; K Wüthrich
Journal:  J Biomol NMR       Date:  1999-04       Impact factor: 2.835

2.  NMR structure of an alpha-L-LNA:RNA hybrid: structural implications for RNase H recognition.

Authors:  Jakob T Nielsen; Paul C Stein; Michael Petersen
Journal:  Nucleic Acids Res       Date:  2003-10-15       Impact factor: 16.971

3.  Interactions of protein side chains with RNA defined with REDOR solid state NMR.

Authors:  Wei Huang; Gabriele Varani; Gary P Drobny
Journal:  J Biomol NMR       Date:  2011-09-25       Impact factor: 2.835

4.  Atomic detail investigation of the structure and dynamics of DNA.RNA hybrids: a molecular dynamics study.

Authors:  U Deva Priyakumar; Alexander D Mackerell
Journal:  J Phys Chem B       Date:  2008-01-16       Impact factor: 2.991

5.  Unusual thermal stability of RNA/[RP-PS]-DNA/RNA triplexes containing a homopurine DNA strand.

Authors:  Piotr Guga; Malgorzata Boczkowska; Magdalena Janicka; Anna Maciaszek; Slawomir Kuberski; Wojciech J Stec
Journal:  Biophys J       Date:  2007-01-11       Impact factor: 4.033

6.  Conformational dynamics in mixed alpha/beta-oligonucleotides containing polarity reversals: a molecular dynamics study using time-averaged restraints.

Authors:  J M Aramini; A Mujeeb; N B Ulyanov; M W Germann
Journal:  J Biomol NMR       Date:  2000-12       Impact factor: 2.835

7.  Solution structure of an arabinonucleic acid (ANA)/RNA duplex in a chimeric hairpin: comparison with 2'-fluoro-ANA/RNA and DNA/RNA hybrids.

Authors:  A Y Denisov; A M Noronha; C J Wilds; J F Trempe; R T Pon; K Gehring; M J Damha
Journal:  Nucleic Acids Res       Date:  2001-11-01       Impact factor: 16.971

8.  Crystal structure of HIV-1 reverse transcriptase in complex with a polypurine tract RNA:DNA.

Authors:  S G Sarafianos; K Das; C Tantillo; A D Clark; J Ding; J M Whitcomb; P L Boyer; S H Hughes; E Arnold
Journal:  EMBO J       Date:  2001-03-15       Impact factor: 11.598

9.  Structure of the U6 RNA intramolecular stem-loop harboring an S(P)-phosphorothioate modification.

Authors:  Nicholas J Reiter; Laura J Nikstad; Anne M Allmann; Randal J Johnson; Samuel E Butcher
Journal:  RNA       Date:  2003-05       Impact factor: 4.942

10.  Specific phosphorothioate substitution within domain 6 of a group II intron ribozyme leads to changes in local structure and metal ion binding.

Authors:  Michèle C Erat; Emina Besic; Michael Oberhuber; Silke Johannsen; Roland K O Sigel
Journal:  J Biol Inorg Chem       Date:  2017-12-07       Impact factor: 3.358

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