1v3n

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[[Image:1v3n.gif|left|200px]]
 
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==Crystal structure of d(GCGAGAGC): the DNA quadruplex structure split from the octaplex==
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The line below this paragraph, containing "STRUCTURE_1v3n", creates the "Structure Box" on the page.
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<StructureSection load='1v3n' size='340' side='right'caption='[[1v3n]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[1v3n]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V3N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1V3N FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.8&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CBR:5-BROMO-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>CBR</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>
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{{STRUCTURE_1v3n| PDB=1v3n | SCENE= }}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1v3n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v3n OCA], [https://pdbe.org/1v3n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1v3n RCSB], [https://www.ebi.ac.uk/pdbsum/1v3n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1v3n ProSAT]</span></td></tr>
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</table>
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'''Crystal structure of d(GCGAGAGC): the DNA quadruplex structure split from the octaplex'''
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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==Overview==
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Recent genomic analyses revealed many kinds of tandem repeats of specific sequences. Some of them are related to genetic diseases, but their biological functions and structures are still unknown. Two X-ray structures of a short DNA fragment d(gcGA[G]1Agc) show that four base-intercalated duplexes are assembled to form an octaplex at a low K+ concentration, in which the eight G5 residues form a stacked double G-quartet in the central part. At a higher K+ concentration, however, the octaplex is split into just two halves. These structural features suggest a folding process of eight tandem repeats of d(ccGA[G]4Agg), according to a double Greek-key motif. Such a packaging of the repeats could facilitate slippage of a certain sequence during DNA replication, to induce increase or decrease of the repeats.
Recent genomic analyses revealed many kinds of tandem repeats of specific sequences. Some of them are related to genetic diseases, but their biological functions and structures are still unknown. Two X-ray structures of a short DNA fragment d(gcGA[G]1Agc) show that four base-intercalated duplexes are assembled to form an octaplex at a low K+ concentration, in which the eight G5 residues form a stacked double G-quartet in the central part. At a higher K+ concentration, however, the octaplex is split into just two halves. These structural features suggest a folding process of eight tandem repeats of d(ccGA[G]4Agg), according to a double Greek-key motif. Such a packaging of the repeats could facilitate slippage of a certain sequence during DNA replication, to induce increase or decrease of the repeats.
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==About this Structure==
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Crystal structures of a DNA octaplex with I-motif of G-quartets and its splitting into two quadruplexes suggest a folding mechanism of eight tandem repeats.,Kondo J, Adachi W, Umeda S, Sunami T, Takenaka A Nucleic Acids Res. 2004 May 7;32(8):2541-9. Print 2004. PMID:15133122<ref>PMID:15133122</ref>
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V3N OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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Crystal structures of a DNA octaplex with I-motif of G-quartets and its splitting into two quadruplexes suggest a folding mechanism of eight tandem repeats., Kondo J, Adachi W, Umeda S, Sunami T, Takenaka A, Nucleic Acids Res. 2004 May 7;32(8):2541-9. Print 2004. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15133122 15133122]
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</div>
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[[Category: Kondo, J.]]
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<div class="pdbe-citations 1v3n" style="background-color:#fffaf0;"></div>
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[[Category: Sunami, T.]]
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== References ==
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[[Category: Takenaka, A.]]
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<references/>
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[[Category: Umeda, S.]]
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__TOC__
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[[Category: Base-intercalated duplex]]
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</StructureSection>
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[[Category: Base-intercalated motif]]
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[[Category: Large Structures]]
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[[Category: Crystal struture]]
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[[Category: Kondo J]]
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[[Category: Deoxyribonucleic acid]]
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[[Category: Sunami T]]
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[[Category: Dna]]
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[[Category: Takenaka A]]
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[[Category: G-duet]]
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[[Category: Umeda S]]
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[[Category: Octaplex]]
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[[Category: Quadruplex]]
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[[Category: Sheared g:a pair]]
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[[Category: X-ray analysis]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 12:02:09 2008''
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Current revision

Crystal structure of d(GCGAGAGC): the DNA quadruplex structure split from the octaplex

PDB ID 1v3n

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