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1js5

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{{Seed}}
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{{STRUCTURE_1js5| PDB=1js5 | SCENE= }}
{{STRUCTURE_1js5| PDB=1js5 | SCENE= }}
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'''Solution Structure of dAAUAA DNA Bulge'''
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===Solution Structure of dAAUAA DNA Bulge===
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==Overview==
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The NMR structure analysis is described for two DNA molecules of identical stem sequences with a five base loop containing a pyrimidine, thymin or uracil, in between purines. These five unpaired nucleotides are bulged out and are known to induce a kink in the duplex structure. The dAATAA bulge DNA is kinked between the third and the fourth nucleotide. This contrasts with the previously studied dAAAAA bulge DNA where we found a kink between the fourth and fifth nucleotide. The total kinking angle is approximately 104 degrees for the dAATAA bulge. The findings were supported by electrophoretic data and fluorescence resonance energy transfer measurements of a similar DNA molecule end-labeled by suitable fluorescent dyes. For the dAAUAA bulge the NMR data result in a similar structure as reported for the dAATAA bulge with a kinking angle of approximately 87 degrees. The results are discussed in comparison with a rAAUAA RNA bulge found in a group I intron. Generally, the sequence-dependent structure of bulges is important to understand the role of DNA bulges in protein recognition.
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The line below this paragraph, {{ABSTRACT_PUBMED_12060684}}, adds the Publication Abstract to the page
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(as it appears on PubMed at http://www.pubmed.gov), where 12060684 is the PubMed ID number.
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{{ABSTRACT_PUBMED_12060684}}
==About this Structure==
==About this Structure==
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JS5 OCA].
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Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JS5 OCA].
==Reference==
==Reference==
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[[Category: Dna bulge]]
[[Category: Dna bulge]]
[[Category: Five-nucleotide bulge loop]]
[[Category: Five-nucleotide bulge loop]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 21:48:56 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 1 20:43:20 2008''

Revision as of 17:43, 1 July 2008

Image:1js5.png

Template:STRUCTURE 1js5

Solution Structure of dAAUAA DNA Bulge

Template:ABSTRACT PUBMED 12060684

About this Structure

Full experimental information is available from OCA.

Reference

Solution structure of dAATAA and dAAUAA DNA bulges., Gollmick FA, Lorenz M, Dornberger U, von Langen J, Diekmann S, Fritzsche H, Nucleic Acids Res. 2002 Jun 15;30(12):2669-77. PMID:12060684

Page seeded by OCA on Tue Jul 1 20:43:20 2008

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