1ho6: Difference between revisions

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[[Image:1ho6.gif|left|200px]]
{{Seed}}
[[Image:1ho6.png|left|200px]]


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{{STRUCTURE_1ho6|  PDB=1ho6  |  SCENE=  }}  
{{STRUCTURE_1ho6|  PDB=1ho6  |  SCENE=  }}  


'''CHIMERIC ARABINONUCLEIC ACID (ANA) HAIRPIN WITH ANA/RNA HYBRID STEM'''
===CHIMERIC ARABINONUCLEIC ACID (ANA) HAIRPIN WITH ANA/RNA HYBRID STEM===




==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.
The line below this paragraph, {{ABSTRACT_PUBMED_11691916}}, adds the Publication Abstract to the page
(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==
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HO6 OCA].  
Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HO6 OCA].  


==Reference==
==Reference==
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[[Category: Hairpin]]
[[Category: Hairpin]]
[[Category: Rna]]
[[Category: Rna]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 19:03:44 2008''
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 1 08:27:47 2008''

Revision as of 05:27, 1 July 2008

File:1ho6.png

Template:STRUCTURE 1ho6

CHIMERIC ARABINONUCLEIC ACID (ANA) HAIRPIN WITH ANA/RNA HYBRID STEM

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

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