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1fc8

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{{STRUCTURE_1fc8| PDB=1fc8 | SCENE= }}
{{STRUCTURE_1fc8| PDB=1fc8 | SCENE= }}
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'''NMR SOLUTION STRUCTURE OF A CHIMERIC OLIGONUCLEOTIDE HAIRPIN R(GGAC)D(TTCG)2'F-A(GTCC)'''
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===NMR SOLUTION STRUCTURE OF A CHIMERIC OLIGONUCLEOTIDE HAIRPIN R(GGAC)D(TTCG)2'F-A(GTCC)===
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==Overview==
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The first structure of a 2'-deoxy-2'-fluoro-D-arabinose nucleic acid (2'F-ANA)/RNA duplex is presented. We report the structural characterization by NMR spectroscopy of a small hybrid hairpin, r(GGAC)d(TTCG)2'F-a(GTCC), containing a 2'F-ANA/RNA stem and a four-residue DNA loop. Complete (1)H, (13)C, (19)F, and (31)P resonance assignments, scalar coupling constants, and NOE constraints were obtained from homonuclear and heteronuclear 2D spectra. In the chimeric duplex, the RNA strand adopts a classic A-form structure having C3' endo sugar puckers. The 2'F-ANA strand is neither A-form nor B-form and contains O4' endo sugar puckers. This contrasts strongly with the dynamic sugar conformations previously observed in the DNA strands of DNA/RNA hybrid duplexes. Structural parameters for the duplex, such as minor groove width, x-displacement, and inclination, were intermediate between those of A-form and B-form duplexes and similar to those of DNA/RNA duplexes. These results rationalize the enhanced stability of 2'F-ANA/RNA duplexes and their ability to elicit RNase H activity. The results are relevant for the design of new antisense drugs based on sugar-modified nucleic acids.
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The line below this paragraph, {{ABSTRACT_PUBMED_11457316}}, adds the Publication Abstract to the page
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(as it appears on PubMed at http://www.pubmed.gov), where 11457316 is the PubMed ID number.
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{{ABSTRACT_PUBMED_11457316}}
==About this Structure==
==About this Structure==
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FC8 OCA].
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Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FC8 OCA].
==Reference==
==Reference==
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[[Category: Hybrid duplex]]
[[Category: Hybrid duplex]]
[[Category: Rna]]
[[Category: Rna]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 1 03:02:04 2008''

Revision as of 00:02, 1 July 2008

Image:1fc8.png

Template:STRUCTURE 1fc8

NMR SOLUTION STRUCTURE OF A CHIMERIC OLIGONUCLEOTIDE HAIRPIN R(GGAC)D(TTCG)2'F-A(GTCC)

Template:ABSTRACT PUBMED 11457316

About this Structure

Full experimental information is available from OCA.

Reference

NMR solution structure of an oligonucleotide hairpin with a 2'F-ANA/RNA stem: implications for RNase H specificity toward DNA/RNA hybrid duplexes., Trempe JF, Wilds CJ, Denisov AY, Pon RT, Damha MJ, Gehring K, J Am Chem Soc. 2001 May 30;123(21):4896-903. PMID:11457316

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