1cx5: Difference between revisions

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[[Image:1cx5.gif|left|200px]]
{{Seed}}
[[Image:1cx5.png|left|200px]]


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{{STRUCTURE_1cx5|  PDB=1cx5  |  SCENE=  }}  
{{STRUCTURE_1cx5|  PDB=1cx5  |  SCENE=  }}  


'''ANTISENSE DNA/RNA HYBRID CONTAINING MODIFIED BACKBONE'''
===ANTISENSE DNA/RNA HYBRID CONTAINING MODIFIED BACKBONE===




==Overview==
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The solution structure of an antisense DNA.RNA hybrid duplex, d(CGCGTT-MMI-TTGCGC).r(GCGCAAAACGCG) (designated R4), containing an MMI backbone linker [3'-CH(2)N(CH(3))-O5'], is elucidated. The structural details of the MMI linker, its structural effects on the neighboring residues, and the molecular basis of the MMI effects are examined. The lipophilic N-methyl group of MMI is peripheral to the helix, assuming a conformation that is most stable with regard to the N-O torsion angle. The MMI linker promotes a 3'-endo conformation for the sugar moieties at both 3'- and 5'-adjacent positions and a backbone kink involving distant residues along the 3'-direction. Comparison of R4 with other analogous hybrid duplexes previously studied in this laboratory reveals a new family of low-energy helical conformations that can be accommodated in stable duplexes and a common feature of C3'-modified sugars for adopting a C3'-endo pucker. The results of these studies emphasize the interplay of several factors that govern the formation of stable hybrid duplexes and provide a basis for the understanding of the biological role of the MMI modifications, which are important building blocks for a family of promising chimeric antisense oligonucleotides.
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{{ABSTRACT_PUBMED_10504227}}


==About this Structure==
==About this Structure==
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CX5 OCA].  
Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CX5 OCA].  


==Reference==
==Reference==
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[[Category: Modified backbone linker]]
[[Category: Modified backbone linker]]
[[Category: Nmr]]
[[Category: Nmr]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May  2 13:12:38 2008''
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jun 30 21:41:37 2008''

Revision as of 18:41, 30 June 2008

File:1cx5.png

Template:STRUCTURE 1cx5

ANTISENSE DNA/RNA HYBRID CONTAINING MODIFIED BACKBONE

Template:ABSTRACT PUBMED 10504227

About this Structure

Full experimental information is available from OCA.

Reference

NMR structure of an antisense DNA.RNA hybrid duplex containing a 3'-CH(2)N(CH(3))-O-5' or an MMI backbone linker., Yang X, Han X, Cross C, Bare S, Sanghvi Y, Gao X, Biochemistry. 1999 Sep 28;38(39):12586-96. PMID:10504227

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