1ju0

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[[Image:1ju0.gif|left|200px]]
[[Image:1ju0.gif|left|200px]]
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{{Structure
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|PDB= 1ju0 |SIZE=350|CAPTION= <scene name='initialview01'>1ju0</scene>
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The line below this paragraph, containing "STRUCTURE_1ju0", creates the "Structure Box" on the page.
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|SITE=
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|LIGAND= <scene name='pdbligand=DA:2&#39;-DEOXYADENOSINE-5&#39;-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2&#39;-DEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2&#39;-DEOXYGUANOSINE-5&#39;-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5&#39;-MONOPHOSPHATE'>DT</scene>
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{{STRUCTURE_1ju0| PDB=1ju0 | SCENE= }}
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|RELATEDENTRY=[[1jtj|1JTJ]], [[1ju1|1JU1]], [[1jua|1JUA]]
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ju0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ju0 OCA], [http://www.ebi.ac.uk/pdbsum/1ju0 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1ju0 RCSB]</span>
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'''NMR solution structure of a DNA kissing complex'''
'''NMR solution structure of a DNA kissing complex'''
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==About this Structure==
==About this Structure==
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1JU0 is a [[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=1JU0 OCA].
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JU0 OCA].
==Reference==
==Reference==
A new peculiar DNA structure: NMR solution structure of a DNA kissing complex., Barbault F, Huynh-Dinh T, Paoletti J, Lanceloti G, J Biomol Struct Dyn. 2002 Feb;19(4):649-58. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11843626 11843626]
A new peculiar DNA structure: NMR solution structure of a DNA kissing complex., Barbault F, Huynh-Dinh T, Paoletti J, Lanceloti G, J Biomol Struct Dyn. 2002 Feb;19(4):649-58. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11843626 11843626]
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[[Category: Protein complex]]
 
[[Category: Barbault, F.]]
[[Category: Barbault, F.]]
[[Category: Huynh-Dinh, T.]]
[[Category: Huynh-Dinh, T.]]
[[Category: Lancelot, G.]]
[[Category: Lancelot, G.]]
[[Category: Paoletti, J.]]
[[Category: Paoletti, J.]]
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[[Category: dna]]
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[[Category: Dna]]
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[[Category: hiv]]
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[[Category: Hiv]]
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[[Category: kissing complex]]
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[[Category: Kissing complex]]
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[[Category: loop-loop dimer]]
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[[Category: Loop-loop dimer]]
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[[Category: sl1]]
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[[Category: Sl1]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 21:55:08 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 21:38:59 2008''
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Revision as of 18:55, 2 May 2008

Image:1ju0.gif

Template:STRUCTURE 1ju0

NMR solution structure of a DNA kissing complex


Overview

The deoxyoligoribonucleotide d(CTTGCTGAAGCGCGCACGGCAAG) (dSL1) corresponding to the reverse transcripted sequence of the dimerization initiation site SL1 of HIV- 1(Lai) RNA was synthesized using phosphoramidite chemistry. Like its oligoribonucleotide counterpart, dSL1 dimerized spontaneously in solution. Here we report the first NMR solution structure of a kissing complex formed with two DNA strands. The melting point of the DNA dimer (35 degrees C) was found slightly higher than the one of the corresponding RNA dimer (32 degrees C). Despite this only slight difference in melting point, several structural differences were observed between the ribo- and the deoxyribo- dimers. The solution structure of the deoxy- dimer was a symmetric homodimer with a loop-loop interaction stabilized by four central G-C base-pairs, a head to tail A-A base-pair arrangement between the A8 residues of the two strands and a stacking of A9 with C15. As a consequence, G10 was not paired and occupied a position outside the stem and the loop. Each stem was formed by seven base-pairs whose axis made an angle of about 100 degree with the plane of the loops. The distortion of the helix at the junction of the stem and of the loop induced a fold up of the A8pA9 step with a phosphate-phosphate distance lowered to 4.5 A. The plane of the non-canonical A-A base-pair was oriented perpendicularly to the axis of the stems. The four central base-pairs formed an open fan-shaped motif with an angle of 20 degrees between the bases and each of them was oriented perpendicularly to the A8-A8 plane. The deviation of the computed chemical shifts and the experimental ones for the aromatic proton was always less than 0.25ppm for each of the 16 converged solution structures and their average less than 0.1ppm.

About this Structure

Full crystallographic information is available from OCA.

Reference

A new peculiar DNA structure: NMR solution structure of a DNA kissing complex., Barbault F, Huynh-Dinh T, Paoletti J, Lanceloti G, J Biomol Struct Dyn. 2002 Feb;19(4):649-58. PMID:11843626 Page seeded by OCA on Fri May 2 21:55:08 2008

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