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[[Image:446d.gif|left|200px]]


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==STRUCTURE OF THE OLIGONUCLEOTIDE D(CGTATATACG) AS A SITE SPECIFIC COMPLEX WITH NICKEL IONS==
The line below this paragraph, containing "STRUCTURE_446d", creates the "Structure Box" on the page.
<StructureSection load='446d' size='340' side='right'caption='[[446d]], [[Resolution|resolution]] 3.00&Aring;' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<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>
or leave the SCENE parameter empty for the default display.
</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>
-->
<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>
{{STRUCTURE_446d|  PDB=446d  |  SCENE= }}
<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>
 
</table>
'''STRUCTURE OF THE OLIGONUCLEOTIDE D(CGTATATACG) AS A SITE SPECIFIC COMPLEX WITH NICKEL IONS'''
__TOC__
 
</StructureSection>
 
[[Category: Large Structures]]
==Overview==
[[Category: Abrescia NGA]]
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.
[[Category: Gonzaga LF]]
 
[[Category: Huynh-Dinh T]]
==About this Structure==
[[Category: Malinina L]]
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=446D OCA].  
[[Category: Neidle S]]
 
[[Category: Subirana JA]]
==Reference==
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://www.ncbi.nlm.nih.gov/pubmed/10075989 10075989]
[[Category: Abrescia, N G.A.]]
[[Category: Gonzaga, L F.]]
[[Category: Huynh-Dinh, T.]]
[[Category: Malinina, L.]]
[[Category: Neidle, S.]]
[[Category: Subirana, J A.]]
[[Category: Nickel binding]]
[[Category: Triple helix]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 22:18:18 2008''

Latest revision as of 10:39, 1 March 2024

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

446d, resolution 3.00Å

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