This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


446d

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (10:39, 1 March 2024) (edit) (undo)
 
(6 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:446d.gif|left|200px]]
 
-
<!--
+
==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''
+

Current revision

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

PDB ID 446d

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/446d"
Personal tools