1bwt
From Proteopedia
(New page: 200px<br /><applet load="1bwt" size="450" color="white" frame="true" align="right" spinBox="true" caption="1bwt" /> '''NMR SOLUTION STRUCTURE OF [D(GCGAATCGC)2]'''...) |
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'''NMR SOLUTION STRUCTURE OF [D(GCGAATCGC)2]'''<br /> | '''NMR SOLUTION STRUCTURE OF [D(GCGAATCGC)2]'''<br /> | ||
==Overview== | ==Overview== | ||
| - | We present the high-resolution solution structures of a self-complementary | + | We present the high-resolution solution structures of a self-complementary DNA decamer duplex featuring a single alpha-anomeric nucleotide per strand encompassed by a set of 3'-3' and 5'-5' phosphodiester linkages, d(GCGAAT-3'-3'-alphaT-5'-5'-CGC)2, alphaT, and its unmodified control, d(GCGAATTCGC)2, obtained by restrained molecular dynamics. Interproton distance and deoxyribose ring torsion angle restraints were deduced from homonuclear NOESY and DQF-COSY data, respectively. For both the control and alphaT duplexes, excellent global convergence was observed from two different (A- and B-) starting models. The final average structures of the two duplexes are highly homologous, and overall possess the traits characteristic of right-handed B-DNA duplexes. However, localized differences between the two structures stem from the enhanced conformational exchange in the deoxyribose ring of the cytidine following the 5'-5' linkage, the C3'- exo pseudorotation phase angle of the alpha-nucleotide, and unusual backbone torsions in the 3'-3' and 5'-5' phosphodiester linkages. The structural data reported here are relevant to the design of antisense therapeutics comprised of these modifications. |
==About this Structure== | ==About this Structure== | ||
| - | 1BWT 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:// | + | 1BWT 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=1BWT OCA]. |
==Reference== | ==Reference== | ||
NMR solution structures of [d(GCGAAT-3'-3'-alphaT-5'-5'-CGC)2] and its unmodified control., Aramini JM, Mujeeb A, Germann MW, Nucleic Acids Res. 1998 Dec 15;26(24):5644-54. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=9837995 9837995] | NMR solution structures of [d(GCGAAT-3'-3'-alphaT-5'-5'-CGC)2] and its unmodified control., Aramini JM, Mujeeb A, Germann MW, Nucleic Acids Res. 1998 Dec 15;26(24):5644-54. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=9837995 9837995] | ||
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
| - | [[Category: Aramini, J | + | [[Category: Aramini, J M.]] |
| - | [[Category: Germann, M | + | [[Category: Germann, M W.]] |
[[Category: Mujeeb, A.]] | [[Category: Mujeeb, A.]] | ||
[[Category: ecori recognition site]] | [[Category: ecori recognition site]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 11:59:56 2008'' |
Revision as of 09:59, 21 February 2008
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NMR SOLUTION STRUCTURE OF [D(GCGAATCGC)2]
Overview
We present the high-resolution solution structures of a self-complementary DNA decamer duplex featuring a single alpha-anomeric nucleotide per strand encompassed by a set of 3'-3' and 5'-5' phosphodiester linkages, d(GCGAAT-3'-3'-alphaT-5'-5'-CGC)2, alphaT, and its unmodified control, d(GCGAATTCGC)2, obtained by restrained molecular dynamics. Interproton distance and deoxyribose ring torsion angle restraints were deduced from homonuclear NOESY and DQF-COSY data, respectively. For both the control and alphaT duplexes, excellent global convergence was observed from two different (A- and B-) starting models. The final average structures of the two duplexes are highly homologous, and overall possess the traits characteristic of right-handed B-DNA duplexes. However, localized differences between the two structures stem from the enhanced conformational exchange in the deoxyribose ring of the cytidine following the 5'-5' linkage, the C3'- exo pseudorotation phase angle of the alpha-nucleotide, and unusual backbone torsions in the 3'-3' and 5'-5' phosphodiester linkages. The structural data reported here are relevant to the design of antisense therapeutics comprised of these modifications.
About this Structure
1BWT is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
NMR solution structures of [d(GCGAAT-3'-3'-alphaT-5'-5'-CGC)2] and its unmodified control., Aramini JM, Mujeeb A, Germann MW, Nucleic Acids Res. 1998 Dec 15;26(24):5644-54. PMID:9837995
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