1cx5
From Proteopedia
(New page: 200px<br /><applet load="1cx5" size="450" color="white" frame="true" align="right" spinBox="true" caption="1cx5" /> '''ANTISENSE DNA/RNA HYBRID CONTAINING MODIFIED...) |
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| - | [[Image:1cx5.gif|left|200px]]<br /><applet load="1cx5" size=" | + | [[Image:1cx5.gif|left|200px]]<br /><applet load="1cx5" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="1cx5" /> | caption="1cx5" /> | ||
'''ANTISENSE DNA/RNA HYBRID CONTAINING MODIFIED BACKBONE'''<br /> | '''ANTISENSE DNA/RNA HYBRID CONTAINING MODIFIED BACKBONE'''<br /> | ||
==Overview== | ==Overview== | ||
| - | The solution structure of an antisense DNA.RNA hybrid duplex, d(CGCGTT-MMI-TTGCGC).r(GCGCAAAACGCG) (designated R4), containing an MMI | + | 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. |
==About this Structure== | ==About this Structure== | ||
| - | 1CX5 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http:// | + | 1CX5 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CX5 OCA]. |
==Reference== | ==Reference== | ||
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[[Category: nmr]] | [[Category: nmr]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 12:10:39 2008'' |
Revision as of 10:10, 21 February 2008
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ANTISENSE DNA/RNA HYBRID CONTAINING MODIFIED BACKBONE
Overview
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.
About this Structure
1CX5 is a Protein complex structure of sequences from [1]. Full crystallographic 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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