104d
From Proteopedia
(New page: 200px<br /> <applet load="104d" size="450" color="white" frame="true" align="right" spinBox="true" caption="104d" /> '''DNA DUPLEXES FLANKED BY HYBRID DUPLEXES: TH...) |
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'''DNA DUPLEXES FLANKED BY HYBRID DUPLEXES: THE SOLUTION STRUCTURE OF CHIMERIC JUNCTIONS IN'''<br /> | '''DNA DUPLEXES FLANKED BY HYBRID DUPLEXES: THE SOLUTION STRUCTURE OF CHIMERIC JUNCTIONS IN'''<br /> | ||
==Overview== | ==Overview== | ||
| - | Hybrid duplexes and chimeric duplexes containing hybrid segments linked to, pure DNA (or pure RNA) segments are involved in transcription and, replication, as well as reverse transcription. A complete understanding of, the mechanism of these processes requires detailed information on such, duplexes and the junctions between duplexes of differing structure. Using, two-dimensional NMR, restrained molecular dynamics and mechanics, and, back-calculation refinement against the nuclear Overhauser effect spectra, at various mixing times, we have determined the solution structure of the, chimeric duplex [r(cgcg)d-(TATACGCG)]2 containing a pure DNA segment in, the center of a hybrid duplex. The solution structure differs from the, previously determined X-ray structure of the analogous duplex, | + | Hybrid duplexes and chimeric duplexes containing hybrid segments linked to, pure DNA (or pure RNA) segments are involved in transcription and, replication, as well as reverse transcription. A complete understanding of, the mechanism of these processes requires detailed information on such, duplexes and the junctions between duplexes of differing structure. Using, two-dimensional NMR, restrained molecular dynamics and mechanics, and, back-calculation refinement against the nuclear Overhauser effect spectra, at various mixing times, we have determined the solution structure of the, chimeric duplex [r(cgcg)d-(TATACGCG)]2 containing a pure DNA segment in, the center of a hybrid duplex. The solution structure differs from the, previously determined X-ray structure of the analogous duplex, [r(gcg)d(TATACGC)]2, which was found to be A-form throughout [Wang, A.H.-J., et al. (1982) Nature 299, 601-604]. The basic features of the, solution structure are (a) the RNA residues are all A-form with C3'-endo, sugar conformations, (b) the central DNA segment is B-form, (c) the, transition from A-form RNA sugar conformations to B-form DNA sugar, conformations involves only the dT5 base step, and (d) although the sugar, conformations of the DNA residues A6-G12 are closer to B-form, the basic, helical properties of the peripheral RNA.DNA hybrid segments are closer to, typical A-form than to B-form. |
==About this Structure== | ==About this Structure== | ||
| - | 104D is a | + | 104D 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=104D OCA]. |
==Reference== | ==Reference== | ||
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[[Category: rna]] | [[Category: rna]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri Feb 15 15:27:53 2008'' |
Revision as of 13:27, 15 February 2008
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DNA DUPLEXES FLANKED BY HYBRID DUPLEXES: THE SOLUTION STRUCTURE OF CHIMERIC JUNCTIONS IN
Overview
Hybrid duplexes and chimeric duplexes containing hybrid segments linked to, pure DNA (or pure RNA) segments are involved in transcription and, replication, as well as reverse transcription. A complete understanding of, the mechanism of these processes requires detailed information on such, duplexes and the junctions between duplexes of differing structure. Using, two-dimensional NMR, restrained molecular dynamics and mechanics, and, back-calculation refinement against the nuclear Overhauser effect spectra, at various mixing times, we have determined the solution structure of the, chimeric duplex [r(cgcg)d-(TATACGCG)]2 containing a pure DNA segment in, the center of a hybrid duplex. The solution structure differs from the, previously determined X-ray structure of the analogous duplex, [r(gcg)d(TATACGC)]2, which was found to be A-form throughout [Wang, A.H.-J., et al. (1982) Nature 299, 601-604]. The basic features of the, solution structure are (a) the RNA residues are all A-form with C3'-endo, sugar conformations, (b) the central DNA segment is B-form, (c) the, transition from A-form RNA sugar conformations to B-form DNA sugar, conformations involves only the dT5 base step, and (d) although the sugar, conformations of the DNA residues A6-G12 are closer to B-form, the basic, helical properties of the peripheral RNA.DNA hybrid segments are closer to, typical A-form than to B-form.
About this Structure
104D is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
DNA duplexes flanked by hybrid duplexes: the solution structure of chimeric junctions in [r(cgcg)d(TATACGCG)]2., Zhu L, Salazar M, Reid BR, Biochemistry. 1995 Feb 21;34(7):2372-80. PMID:7857947
Page seeded by OCA on Fri Feb 15 15:27:53 2008
Categories: Protein complex | Reid, B.R. | Salazar, M. | Zhu, L. | Dna | Duplex | Hybrid | Junction | Nmr | Rna
