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446d

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[[Image:446d.gif|left|200px]]<br /><applet load="446d" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="446d, resolution 3.000&Aring;" />
 
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'''STRUCTURE OF THE OLIGONUCLEOTIDE D(CGTATATACG) AS A SITE SPECIFIC COMPLEX WITH NICKEL IONS'''<br />
 
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==Overview==
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==STRUCTURE OF THE OLIGONUCLEOTIDE D(CGTATATACG) AS A SITE SPECIFIC COMPLEX WITH NICKEL IONS==
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In this paper we explore the application of Ni2+to the crystallization of oligonucleotides. We have determined in this way the structure of a fully alternating (Y-R) decanucleotide d(CGTATATACG) by single crystal X-ray diffraction. This is the first oligonucleotide crystal structure with an alternating 5'-(TA)3-3' central part. Alternating oligonucleotides have a particular interest since they often have a unique structure. In this case the general conformation is B-like with an alternating twist and an end-to-end interaction which involves terminal guanines. The crystal belongs to space group P41212 with a = b = 52.46, c = 101.49 A. This packing imposes a 90 degrees crossing of the symmetry related helices. This is a new way of packing for decamers.The oligonucleotide structure is characterized by the specific association with seven nickel ions, involving the N7 atom of every guanine. One of the Ni2+ions is shared between two guanines of symmetry related molecules. Until now no oligonucleotide has been crystallized in the presence of this metal ion. A novel C.A.T triplet structure has also been tentatively identified.
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<StructureSection load='446d' size='340' side='right'caption='[[446d]], [[Resolution|resolution]] 3.00&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[446d]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=446D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=446D FirstGlance]. <br>
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446D is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=NI:'>NI</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=446D OCA].
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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]] 3&#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=NI:NICKEL+(II)+ION'>NI</scene></td></tr>
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==Reference==
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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=446d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=446d OCA], [https://pdbe.org/446d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=446d RCSB], [https://www.ebi.ac.uk/pdbsum/446d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=446d ProSAT]</span></td></tr>
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Structure of the oligonucleotide d(CGTATATACG) as a site-specific complex with nickel ions., Abrescia NG, Malinina L, Fernandez LG, Huynh-Dinh T, Neidle S, Subirana JA, Nucleic Acids Res. 1999 Apr 1;27(7):1593-9. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10075989 10075989]
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</table>
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[[Category: Protein complex]]
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__TOC__
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[[Category: Abrescia, N G.A.]]
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</StructureSection>
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[[Category: Gonzaga, L F.]]
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[[Category: Large Structures]]
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[[Category: Huynh-Dinh, T.]]
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[[Category: Abrescia NGA]]
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[[Category: Malinina, L.]]
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[[Category: Gonzaga LF]]
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[[Category: Neidle, S.]]
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[[Category: Huynh-Dinh T]]
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[[Category: Subirana, J A.]]
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[[Category: Malinina L]]
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[[Category: NI]]
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[[Category: Neidle S]]
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[[Category: nickel binding]]
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[[Category: Subirana JA]]
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[[Category: triple helix]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 19:12:23 2008''
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Current revision

STRUCTURE OF THE OLIGONUCLEOTIDE D(CGTATATACG) AS A SITE SPECIFIC COMPLEX WITH NICKEL IONS

PDB ID 446d

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