261d

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (09:09, 14 February 2024) (edit) (undo)
 
(10 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:261d.gif|left|200px]]
 
-
<!--
+
==CRYSTAL STRUCTURE OF THE DNA DECAMER D(CGCAATTGCG) COMPLEXED WITH THE MINOR GROOVE BINDING DRUG NETROPSIN==
-
The line below this paragraph, containing "STRUCTURE_261d", creates the "Structure Box" on the page.
+
<StructureSection load='261d' size='340' side='right'caption='[[261d]], [[Resolution|resolution]] 2.40&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'>[[261d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=261D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=261D 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]] 2.4&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NT:NETROPSIN'>NT</scene></td></tr>
-
{{STRUCTURE_261d| PDB=261d | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=261d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=261d OCA], [https://pdbe.org/261d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=261d RCSB], [https://www.ebi.ac.uk/pdbsum/261d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=261d ProSAT]</span></td></tr>
-
 
+
</table>
-
'''CRYSTAL STRUCTURE OF THE DNA DECAMER D(CGCAATTGCG) COMPLEXED WITH THE MINOR GROOVE BINDING DRUG NETROPSIN'''
+
__TOC__
-
 
+
</StructureSection>
-
 
+
[[Category: Large Structures]]
-
==Overview==
+
[[Category: Garman E]]
-
The crystal structure of netropsin bound to the decamer d(CGCAATTGCG) has been determined at 2.4 A resolution. This is the first example of a crystal structure of netropsin bound to decamer DNA. The central eight bases of each DNA single-strand base pair with a self-complementary strand to form an octamer B-DNA duplex. These duplexes lie end to end within the unit cell. The terminal 5'-C and G-3' bases are unpaired and interact with the neighboring duplexes via interactions within both the major and minor groove to form base triplet interactions of the type C(+)-G x C and G*(G x C), respectively. The triplet interaction of the type C(+)-G x C is known to exist within triplex DNA with the C+ base oriented parallel with the Watson-Crick guanine base to which it hydrogen bonds. The netropsin molecule lies within the minor groove of the octamer duplex and assumes a class I type position, with bifurcated hydrogen-bonding interactions from the amide groups of the netropsin to the A x T base pairs of the minor groove. The netropsin molecule fits within a five base pair long minor groove site by bending of the flexible amidinium group at one end of the drug.
+
[[Category: Neidle S]]
-
 
+
[[Category: Nunn CM]]
-
==About this Structure==
+
-
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=261D OCA].
+
-
 
+
-
==Reference==
+
-
Crystal structure of the DNA decamer d(CGCAATTGCG) complexed with the minor groove binding drug netropsin., Nunn CM, Garman E, Neidle S, Biochemistry. 1997 Apr 22;36(16):4792-9. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9125500 9125500]
+
-
[[Category: Garman, E.]]
+
-
[[Category: Neidle, S.]]
+
-
[[Category: Nunn, C M.]]
+
-
[[Category: B-dna]]
+
-
[[Category: Complexed with drug]]
+
-
[[Category: Continuous helix]]
+
-
[[Category: Double helix]]
+
-
[[Category: Flipped-out base]]
+
-
[[Category: Intermolecular base triplet]]
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 18:24:19 2008''
+

Current revision

CRYSTAL STRUCTURE OF THE DNA DECAMER D(CGCAATTGCG) COMPLEXED WITH THE MINOR GROOVE BINDING DRUG NETROPSIN

PDB ID 261d

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/261d"
Personal tools