473d

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (00:35, 28 December 2023) (edit) (undo)
 
(7 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:473d.gif|left|200px]]
 
-
<!--
+
==NI2+/GUANINE INTERACTIONS AND NETROPSIN/GUANINE STACKING IN D(CGTATATACG)2==
-
The line below this paragraph, containing "STRUCTURE_473d", creates the "Structure Box" on the page.
+
<StructureSection load='473d' size='340' side='right'caption='[[473d]], [[Resolution|resolution]] 1.58&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'>[[473d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=473D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=473D 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]] 1.58&#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>, <scene name='pdbligand=NT:NETROPSIN'>NT</scene></td></tr>
-
{{STRUCTURE_473d| PDB=473d | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=473d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=473d OCA], [https://pdbe.org/473d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=473d RCSB], [https://www.ebi.ac.uk/pdbsum/473d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=473d ProSAT]</span></td></tr>
-
 
+
</table>
-
'''NI2+/GUANINE INTERACTIONS AND NETROPSIN/GUANINE STACKING IN D(CGTATATACG)2'''
+
<div style="background-color:#fffaf0;">
-
 
+
== Publication Abstract from PubMed ==
-
 
+
-
==Overview==
+
We present the structure of the decanucleotide d(CGTATATACG) determined by single crystal X-ray diffraction at 1.58 A resolution. A netropsin drug is found in the minor groove with guanine stacked on a pyrrole ring of the drug, a feature described here for the first time. The stacked guanine is an extra-helical base coming from the end of a neighbour oligonucleotide. This observation may open the way to the development of minor groove binding drugs with a higher sequence selectivity. The oligonucleotide is in the B-conformation, but the terminal base-pairs are disrupted: the cytosine residues are disordered while the guanine residues penetrate into the minor groove of neighbouring duplexes. Four hydrated Ni ions with octahedral co-ordination are found associated with the N7 atoms of each guanine. The high affinity of these ions with guanine suggests that they may be used as probes for specific guanine residues.
We present the structure of the decanucleotide d(CGTATATACG) determined by single crystal X-ray diffraction at 1.58 A resolution. A netropsin drug is found in the minor groove with guanine stacked on a pyrrole ring of the drug, a feature described here for the first time. The stacked guanine is an extra-helical base coming from the end of a neighbour oligonucleotide. This observation may open the way to the development of minor groove binding drugs with a higher sequence selectivity. The oligonucleotide is in the B-conformation, but the terminal base-pairs are disrupted: the cytosine residues are disordered while the guanine residues penetrate into the minor groove of neighbouring duplexes. Four hydrated Ni ions with octahedral co-ordination are found associated with the N7 atoms of each guanine. The high affinity of these ions with guanine suggests that they may be used as probes for specific guanine residues.
-
==About this Structure==
+
Stacking interaction of guanine with netropsin in the minor groove of d(CGTATATACG)2.,Abrescia NG, Malinina L, Subirana JA J Mol Biol. 1999 Dec 3;294(3):657-66. PMID:10610787<ref>PMID:10610787</ref>
-
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=473D OCA].
+
-
==Reference==
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
Stacking interaction of guanine with netropsin in the minor groove of d(CGTATATACG)2., Abrescia NG, Malinina L, Subirana JA, J Mol Biol. 1999 Dec 3;294(3):657-66. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10610787 10610787]
+
</div>
-
[[Category: Abrescia, N G.A.]]
+
<div class="pdbe-citations 473d" style="background-color:#fffaf0;"></div>
-
[[Category: Malinina, L.]]
+
== References ==
-
[[Category: Subirana, J A.]]
+
<references/>
-
[[Category: Minor groove binding]]
+
__TOC__
-
[[Category: Netropsin/guanine stacking]]
+
</StructureSection>
-
[[Category: Ni2+/guanine interaction]]
+
[[Category: Large Structures]]
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 22:19:33 2008''
+
[[Category: Abrescia NGA]]
 +
[[Category: Malinina L]]
 +
[[Category: Subirana JA]]

Current revision

NI2+/GUANINE INTERACTIONS AND NETROPSIN/GUANINE STACKING IN D(CGTATATACG)2

PDB ID 473d

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/473d"
Personal tools