1ac3
From Proteopedia
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| - | [[Image:1ac3.gif|left|200px]] | + | [[Image:1ac3.gif|left|200px]] |
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| - | '''SOLUTION STRUCTURE OF AN RNA-DNA HYBRID DUPLEX CONTAINING A 3'-THIOFORMACETAL LINKER AND AN RNA A-TRACT, NMR, 8 STRUCTURES''' | + | {{Structure |
| + | |PDB= 1ac3 |SIZE=350|CAPTION= <scene name='initialview01'>1ac3</scene> | ||
| + | |SITE= | ||
| + | |LIGAND= | ||
| + | |ACTIVITY= | ||
| + | |GENE= | ||
| + | }} | ||
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| + | '''SOLUTION STRUCTURE OF AN RNA-DNA HYBRID DUPLEX CONTAINING A 3'-THIOFORMACETAL LINKER AND AN RNA A-TRACT, NMR, 8 STRUCTURES''' | ||
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==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
| - | 1AC3 is a [ | + | 1AC3 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AC3 OCA]. |
==Reference== | ==Reference== | ||
| - | Solution structure of an RNA x DNA hybrid duplex containing a 3'-thioformacetal linker and an RNA A-tract., Cross CW, Rice JS, Gao X, Biochemistry. 1997 Apr 8;36(14):4096-107. PMID:[http:// | + | Solution structure of an RNA x DNA hybrid duplex containing a 3'-thioformacetal linker and an RNA A-tract., Cross CW, Rice JS, Gao X, Biochemistry. 1997 Apr 8;36(14):4096-107. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9100003 9100003] |
[[Category: Single protein]] | [[Category: Single protein]] | ||
[[Category: Cross, C W.]] | [[Category: Cross, C W.]] | ||
[[Category: Gao, X.]] | [[Category: Gao, X.]] | ||
[[Category: Rice, J S.]] | [[Category: Rice, J S.]] | ||
| - | [[Category: antisense | + | [[Category: antisense oligonucleotide]] |
[[Category: dna]] | [[Category: dna]] | ||
[[Category: hybrid duplex]] | [[Category: hybrid duplex]] | ||
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[[Category: thioformacetal backbone modification]] | [[Category: thioformacetal backbone modification]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 09:55:34 2008'' |
Revision as of 07:55, 20 March 2008
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SOLUTION STRUCTURE OF AN RNA-DNA HYBRID DUPLEX CONTAINING A 3'-THIOFORMACETAL LINKER AND AN RNA A-TRACT, NMR, 8 STRUCTURES
Overview
Neutral and achiral backbone linkers are promising replacements for the phosphodiester linkages of antisense oligonucleotides that target mRNA sequences. Results are presented here for the solution structure elucidation by NMR of an RNA x DNA hybrid duplex, r(GCGCAAAACGCG) x d(CGCGTT-SCH2O-TTGCGC) (designated RIII), containing a 3'-thioformacetal (3'-TFMA) backbone substitution in the DNA strand. The 3'-thioformacetal linker can be accommodated in the hybrid duplex in a conformation that is drastically different from its form in a DNA x DNA duplex but close to that of the canonical A-form helix, reflecting the sequence requirement for hybridization. While the global features of RIII are similar to what are described in the literature, the 3'-TFMA modification drives sugar puckers of the adjacent residues to more C3'-endo-like conformations and causes distortions in related twist angles and helical rises. The helical conformation analyses of each of the two strands and the hybrid duplex enable a clear account of the conformational variability of both the DNA and RNA strands. The A-tract in the RNA strand features an overall straight helix and a more prominent bend at the 3'-end CG step. The structure of RIII provides a structural basis for the improved thermal stability of RIII compared to the corresponding DNA x DNA duplex and insights into the factors that are important concerns for the design of new, effective antisense oligonucleotides.
About this Structure
1AC3 is a Single protein structure of sequence from [1]. Full crystallographic information is available from OCA.
Reference
Solution structure of an RNA x DNA hybrid duplex containing a 3'-thioformacetal linker and an RNA A-tract., Cross CW, Rice JS, Gao X, Biochemistry. 1997 Apr 8;36(14):4096-107. PMID:9100003
Page seeded by OCA on Thu Mar 20 09:55:34 2008
