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1xv6

From Proteopedia

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{{STRUCTURE_1xv6| PDB=1xv6 | SCENE= }}
{{STRUCTURE_1xv6| PDB=1xv6 | SCENE= }}
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'''The solution structure of 2',5'-linked 3'-O-(2-methoxyethyl)-RNA hairpin'''
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===The solution structure of 2',5'-linked 3'-O-(2-methoxyethyl)-RNA hairpin===
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==Overview==
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The isomerization of phosphodiester functionality of nucleic acids from 3',5'- to a less common 2',5'-linkage influences the complex interplay of stereoelectronic effects that drive pseudorotational equilibrium of sugar rings and thus affect the conformational propensities for compact or more extended structures. The present study highlights the subtle balance of non-covalent forces at play in structural equilibrium of 2',5'-linked RNA analogue, 3'-O-(2-methoxyethyl) substituted dodecamer *CG*CGAA*U*U*CG*CG, 3'-MOE-2',5'-RNA, where all cytosines and uracils are methylated at C5. The NMR and UV spectroscopic studies have shown that 3'-MOE-2',5'-RNA adopts both hairpin and duplex secondary structures, which are involved in a dynamic exchange that is slow on the NMR timescale and exhibits strand and salt concentration as well as pH dependence. Unusual effect of pH over a narrow physiological range is observed for imino proton resonances with exchange broadening observed at lower pH and relatively sharp lines observed at higher pH. The solution structure of 3'-MOE-2',5'-RNA hairpin displays a unique and well-defined loop, which is stabilized by Watson-Crick A5.*U8 base pair and by n --&gt; pi* stacking interactions of O4' lone-pair electrons of A6 and *U8 with aromatic rings of A5 and *U7, respectively. In contrast, the stem region of 3'-MOE-2',5'-RNA hairpin is more flexible. Our data highlight the important feature of backbone modifications that can have pronounced effects on interstrand association of nucleic acids.
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(as it appears on PubMed at http://www.pubmed.gov), where 15788747 is the PubMed ID number.
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{{ABSTRACT_PUBMED_15788747}}
==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=1XV6 OCA].
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Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XV6 OCA].
==Reference==
==Reference==
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[[Category: Plevnik, M.]]
[[Category: Plevnik, M.]]
[[Category: Hairpin]]
[[Category: Hairpin]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 15:32:51 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 03:28:20 2008''

Revision as of 00:28, 28 July 2008

Image:1xv6.png

Template:STRUCTURE 1xv6

The solution structure of 2',5'-linked 3'-O-(2-methoxyethyl)-RNA hairpin

Template:ABSTRACT PUBMED 15788747

About this Structure

Full experimental information is available from OCA.

Reference

Solution structure of a modified 2',5'-linked RNA hairpin involved in an equilibrium with duplex., Plevnik M, Gdaniec Z, Plavec J, Nucleic Acids Res. 2005 Mar 23;33(6):1749-59. Print 2005. PMID:15788747

Page seeded by OCA on Mon Jul 28 03:28:20 2008

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