3qxr

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Line 1: Line 1:
-
[[Image:3qxr.png|left|200px]]
+
==Crystal structure of the brominated CKIT-1 proto-oncogene promoter quadruplex DNA==
 +
<StructureSection load='3qxr' size='340' side='right' caption='[[3qxr]], [[Resolution|resolution]] 1.62&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[3qxr]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QXR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QXR FirstGlance]. <br>
 +
</td></tr><tr><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>
 +
<tr><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene></td></tr>
 +
<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3qxr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qxr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3qxr RCSB], [http://www.ebi.ac.uk/pdbsum/3qxr PDBsum]</span></td></tr>
 +
<table>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
We report here the 1.62 A crystal structure of an intramolecular quadruplex DNA formed from a sequence in the promoter region of the c-kit gene. This is the first reported crystal structure of a promoter quadruplex and the first observation of localized magnesium ions in a quadruplex structure. The structure reveals that potassium and magnesium ions have an unexpected yet significant structural role in stabilizing particular quadruplex loops and grooves that is distinct from but in addition to the role of potassium ions in the ion channel at the centre of all quadruplex structures. The analysis also shows how ions cluster together with structured water molecules to stabilize the quadruplex arrangement. This particular quadruplex has been previously studied by NMR methods, and the present X-ray structure is in accord with the earlier topology assignment. However, as well as the observations of potassium and magnesium ions, the crystal structure has revealed a highly significant difference in the dimensions of the large cleft in the structure, which is a plausible target for small molecules. This difference can be understood by the stabilizing role of structured water networks.
-
<!--
+
Crystal structure of a c-kit promoter quadruplex reveals the structural role of metal ions and water molecules in maintaining loop conformation.,Wei D, Parkinson GN, Reszka AP, Neidle S Nucleic Acids Res. 2012 Jan 28. PMID:22287624<ref>PMID:22287624</ref>
-
The line below this paragraph, containing "STRUCTURE_3qxr", creates the "Structure Box" on the page.
+
-
You may change the PDB parameter (which sets the PDB file loaded into the applet)
+
-
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+
-
or leave the SCENE parameter empty for the default display.
+
-
-->
+
-
{{STRUCTURE_3qxr| PDB=3qxr | SCENE= }}
+
-
===Crystal structure of the brominated CKIT-1 proto-oncogene promoter quadruplex DNA===
+
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-
 
+
</div>
-
 
+
== References ==
-
<!--
+
<references/>
-
The line below this paragraph, {{ABSTRACT_PUBMED_22287624}}, adds the Publication Abstract to the page
+
__TOC__
-
(as it appears on PubMed at http://www.pubmed.gov), where 22287624 is the PubMed ID number.
+
</StructureSection>
-
-->
+
-
{{ABSTRACT_PUBMED_22287624}}
+
-
 
+
-
==About this Structure==
+
-
[[3qxr]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QXR OCA].
+
-
 
+
-
==Reference==
+
-
<ref group="xtra">PMID:022287624</ref><references group="xtra"/>
+
[[Category: Neidle, S.]]
[[Category: Neidle, S.]]
[[Category: Parkinson, G N.]]
[[Category: Parkinson, G N.]]

Revision as of 04:44, 5 June 2014

Crystal structure of the brominated CKIT-1 proto-oncogene promoter quadruplex DNA

3qxr, resolution 1.62Å

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/3qxr"
Views
Personal tools
Navigation
Toolbox