1dcv: Difference between revisions

Revision as of 13:15, 21 February 2008

B-DNA DECAMER WITH CENTRAL TA DINUCLEOTIDE

OverviewOverview

Holliday junctions are important structural intermediates in recombination, viral integration, and DNA repair. We present here the single-crystal structure of the inverted repeat sequence d(CCGGTACCGG) as a Holliday junction at the nominal resolution of 2. 1 A. Unlike the previous crystal structures, this DNA junction has B-DNA arms with all standard Watson-Crick base pairs; it therefore represents the intermediate proposed by Holliday as being involved in homologous recombination. The junction is in the stacked-X conformation, with two interconnected duplexes formed by coaxially stacked arms, and is crossed at an angle of 41.4 degrees as a right-handed X. A sequence comparison with previous B-DNA and junction crystal structures shows that an ACC trinucleotide forms the core of a stable junction in this system. The 3'-C x G base pair of this ACC core forms direct and water-mediated hydrogen bonds to the phosphates at the crossover strands. Interactions within this core define the conformation of the Holliday junction, including the angle relating the stacked duplexes and how the base pairs are stacked in the stable form of the junction.

About this StructureAbout this Structure

1DCV is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.

ReferenceReference

The Holliday junction in an inverted repeat DNA sequence: sequence effects on the structure of four-way junctions., Eichman BF, Vargason JM, Mooers BH, Ho PS, Proc Natl Acad Sci U S A. 2000 Apr 11;97(8):3971-6. PMID:10760268

Page seeded by OCA on Thu Feb 21 12:15:21 2008

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OCA

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-[[Image:1dcv.gif|left|200px]]<br /><applet load="1dcv" size="450" color="white" frame="true" align="right" spinBox="true"
+[[Image:1dcv.gif|left|200px]]<br /><applet load="1dcv" size="350" color="white" frame="true" align="right" spinBox="true"
 caption="1dcv, resolution 2.50&Aring;" />
 '''B-DNA DECAMER WITH CENTRAL TA DINUCLEOTIDE'''<br />
 ==Overview==
-Holliday junctions are important structural intermediates in, recombination, viral integration, and DNA repair. We present here the, single-crystal structure of the inverted repeat sequence d(CCGGTACCGG) as, a Holliday junction at the nominal resolution of 2. 1 A. Unlike the, previous crystal structures, this DNA junction has B-DNA arms with all, standard Watson-Crick base pairs; it therefore represents the intermediate, proposed by Holliday as being involved in homologous recombination. The, junction is in the stacked-X conformation, with two interconnected, duplexes formed by coaxially stacked arms, and is crossed at an angle of, 41.4 degrees as a right-handed X. A sequence comparison with previous, B-DNA and junction crystal structures shows that an ACC trinucleotide, forms the core of a stable junction in this system. The 3'-C x G base pair, of this ACC core forms direct and water-mediated hydrogen bonds to the, phosphates at the crossover strands. Interactions within this core define, the conformation of the Holliday junction, including the angle relating, the stacked duplexes and how the base pairs are stacked in the stable form, of the junction.
+Holliday junctions are important structural intermediates in recombination, viral integration, and DNA repair. We present here the single-crystal structure of the inverted repeat sequence d(CCGGTACCGG) as a Holliday junction at the nominal resolution of 2. 1 A. Unlike the previous crystal structures, this DNA junction has B-DNA arms with all standard Watson-Crick base pairs; it therefore represents the intermediate proposed by Holliday as being involved in homologous recombination. The junction is in the stacked-X conformation, with two interconnected duplexes formed by coaxially stacked arms, and is crossed at an angle of 41.4 degrees as a right-handed X. A sequence comparison with previous B-DNA and junction crystal structures shows that an ACC trinucleotide forms the core of a stable junction in this system. The 3'-C x G base pair of this ACC core forms direct and water-mediated hydrogen bonds to the phosphates at the crossover strands. Interactions within this core define the conformation of the Holliday junction, including the angle relating the stacked duplexes and how the base pairs are stacked in the stable form of the junction.
 ==About this Structure==
-DCV 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://ispc.weizmann.ac.il/oca-bin/ocashort?id=1DCV OCA].
+DCV 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=1DCV OCA].
 ==Reference==
 The Holliday junction in an inverted repeat DNA sequence: sequence effects on the structure of four-way junctions., Eichman BF, Vargason JM, Mooers BH, Ho PS, Proc Natl Acad Sci U S A. 2000 Apr 11;97(8):3971-6. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10760268 10760268]
 [[Category: Protein complex]]
-[[Category: Eichman, B.F.]]
+[[Category: Eichman, B F.]]
-[[Category: Ho, P.S.]]
+[[Category: Ho, P S.]]
-[[Category: Mooers, B.H.M.]]
+[[Category: Mooers, B H.M.]]
-[[Category: Vargason, J.M.]]
+[[Category: Vargason, J M.]]
 [[Category: central ta dinucleotide]]
 [[Category: deoxyribonucleic acid]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 25 02:58:59 2007''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 12:15:21 2008''