1okf: Difference between revisions

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


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{{STRUCTURE_1okf|  PDB=1okf  |  SCENE=  }}  
{{STRUCTURE_1okf|  PDB=1okf  |  SCENE=  }}  


'''NMR STRUCTURE OF AN ALPHA-L-LNA:RNA HYBRID'''
===NMR STRUCTURE OF AN ALPHA-L-LNA:RNA HYBRID===




==Overview==
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Alpha-L-LNA (alpha-L-ribo configured locked nucleic acid) is a nucleotide analogue that raises the thermostability of nucleic acid duplexes by up to approximately 4 degrees C per inclusion. We have determined the NMR structure of a nonamer alpha-L-LNA:RNA hybrid with three alpha-L-LNA modifications. The geometry of this hybrid is intermediate between A- and B-type, all nucleobases partake in Watson-Crick base pairing and base stacking, and the global structure is very similar to that of the corresponding unmodified hybrid. The sugar-phosphate backbone is rearranged in the vicinity of the modified nucleotides. As a consequence, the phosphate groups following the modified nucleotides are rotated into the minor groove. It is interesting that the alpha-L-LNA:RNA hybrid, which has an elevation in melting temperature of 17 degrees C relative to the corresponding DNA:RNA hybrid, retains the global structure of this hybrid. To our knowledge, this is the first example of such a substantial increase in melting temperature of a nucleic acid analogue that does not act as an N-type (RNA) mimic. alpha-L-LNA:RNA hybrids are recognised by RNase H with subsequent cleavage of the RNA strand, albeit with slow rates. We attempt to rationalise this impaired enzyme activity from the rearrangement of the sugar-phosphate backbone of the alpha-L-LNA:RNA hybrid.
The line below this paragraph, {{ABSTRACT_PUBMED_14530434}}, adds the Publication Abstract to the page
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{{ABSTRACT_PUBMED_14530434}}


==About this Structure==
==About this Structure==
1OKF is a [[Single protein]] structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OKF OCA].  
1OKF is a [[Single protein]] structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OKF OCA].  


==Reference==
==Reference==
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[[Category: Rna]]
[[Category: Rna]]
[[Category: Rnase h]]
[[Category: Rnase h]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 03:57:59 2008''
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 13:38:47 2008''

Revision as of 10:38, 29 July 2008

File:1okf.png

Template:STRUCTURE 1okf

NMR STRUCTURE OF AN ALPHA-L-LNA:RNA HYBRID

Template:ABSTRACT PUBMED 14530434

About this Structure

1OKF is a Single protein structure. Full experimental information is available from OCA.

Reference

NMR structure of an alpha-L-LNA:RNA hybrid: structural implications for RNase H recognition., Nielsen JT, Stein PC, Petersen M, Nucleic Acids Res. 2003 Oct 15;31(20):5858-67. PMID:14530434

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