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1hoq

From Proteopedia

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[[Image:1hoq.gif|left|200px]]
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{{STRUCTURE_1hoq| PDB=1hoq | SCENE= }}
{{STRUCTURE_1hoq| PDB=1hoq | SCENE= }}
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'''CHIMERIC RNA/DNA HAIRPIN'''
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===CHIMERIC RNA/DNA HAIRPIN===
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==Overview==
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Hybrids of RNA and arabinonucleic acid (ANA) as well as the 2'-fluoro-ANA analog (2'F-ANA) were recently shown to be substrates of the enzyme RNase H. Although RNase H binds to double-stranded RNA, no cleavage occurs with such duplexes. Therefore, knowledge of the structure of ANA/RNA hybrids may prove helpful in the design of future antisense oligonucleotide analogs. In this study, we have determined the NMR solution structures of ANA/RNA and DNA/RNA hairpin duplexes and compared them to the recently published structure of a 2'F-ANA/RNA hairpin duplex. We demonstrate here that the sugars of RNA nucleotides of the ANA/RNA hairpin stem adopt the C3'-endo (north, A-form) conformation, whereas those of the ANA strand adopt a 'rigid' O4'-endo (east) sugar pucker. The DNA strand of the DNA/RNA hairpin stem is flexible, but the average DNA/RNA hairpin structural parameters are close to the ANA/RNA and 2'F-ANA/RNA hairpin parameters. The minor groove width of ANA/RNA, 2'F-ANA/RNA and DNA/RNA helices is 9.0 +/- 0.5 A, a value that is intermediate between that of A- and B-form duplexes. These results rationalize the ability of ANA/RNA and 2'F-ANA/RNA hybrids to elicit RNase H activity.
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The line below this paragraph, {{ABSTRACT_PUBMED_11691916}}, adds the Publication Abstract to the page
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(as it appears on PubMed at http://www.pubmed.gov), where 11691916 is the PubMed ID number.
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{{ABSTRACT_PUBMED_11691916}}
==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=1HOQ OCA].
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Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HOQ OCA].
==Reference==
==Reference==
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[[Category: Hairpin]]
[[Category: Hairpin]]
[[Category: Rna]]
[[Category: Rna]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 19:04:18 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 1 08:28:28 2008''

Revision as of 05:28, 1 July 2008

Image:1hoq.png

Template:STRUCTURE 1hoq

CHIMERIC RNA/DNA HAIRPIN

Template:ABSTRACT PUBMED 11691916

About this Structure

Full experimental information is available from OCA.

Reference

Solution structure of an arabinonucleic acid (ANA)/RNA duplex in a chimeric hairpin: comparison with 2'-fluoro-ANA/RNA and DNA/RNA hybrids., Denisov AY, Noronha AM, Wilds CJ, Trempe JF, Pon RT, Gehring K, Damha MJ, Nucleic Acids Res. 2001 Nov 1;29(21):4284-93. PMID:11691916

Page seeded by OCA on Tue Jul 1 08:28:28 2008

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