331d

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (08:39, 7 February 2024) (edit) (undo)
 
(8 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:331d.gif|left|200px]]
 
-
<!--
+
==CRYSTAL STRUCTURE OF D(GCGCGCG) WITH 5'-OVERHANG G'S==
-
The line below this paragraph, containing "STRUCTURE_331d", creates the "Structure Box" on the page.
+
<StructureSection load='331d' size='340' side='right'caption='[[331d]], [[Resolution|resolution]] 1.65&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'>[[331d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=331D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=331D 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]] 1.65&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene></td></tr>
-
{{STRUCTURE_331d| PDB=331d | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=331d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=331d OCA], [https://pdbe.org/331d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=331d RCSB], [https://www.ebi.ac.uk/pdbsum/331d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=331d ProSAT]</span></td></tr>
-
 
+
</table>
-
'''CRYSTAL STRUCTURE OF D(GCGCGCG) WITH 5'-OVERHANG G'S'''
+
__TOC__
-
 
+
</StructureSection>
-
 
+
[[Category: Large Structures]]
-
==Overview==
+
[[Category: Ban C]]
-
The crystal structure of the DNA heptamer d(GCGCGCG) has been solved at 1.65 A resolution by the molecular replacement method and refined to an R-value of 0.184 for 3598 reflections. The heptamer forms a Z-DNA d(CGCGCG)2 with 5'-overhang G residues instead of an A-DNA d(GCGCGC)2 with 3'-overhang G residues. The overhang G residues from parallel strands of two adjacent duplexes form a trans reverse Hoogsteen G x G basepair that stacks on the six Z-DNA basepairs to produce a pseudocontinuous helix. The reverse Hoogsteen G x G basepair is unusual in that the displacement of one G base relative to the other allows them to participate in a bifurcated (G1)N2 . . . N7(G8) and an enhanced (G8)C8-H . . . O6(G1) hydrogen bond, in addition to the two usual hydrogen bonds. The 5'-overhang G residues are anti and C2'-endo while the 3'-terminal G residues are syn and C2'-endo. The conformations of both G residues are different from the syn/C3'-endo for the guanosine in a standard Z-DNA. The two cobalt hexammine ions bind to the phosphate groups in both GpC and CpG steps in Z(I) and Z(II) conformations. The water structure motif is similar to the other Z-DNA structures.
+
[[Category: Pan B]]
-
 
+
[[Category: Sundaralingam M]]
-
==About this Structure==
+
[[Category: Wahl M]]
-
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=331D OCA].
+
-
 
+
-
==Reference==
+
-
Crystal structure of d(GCGCGCG) with 5'-overhang G residues., Pan B, Ban C, Wahl MC, Sundaralingam M, Biophys J. 1997 Sep;73(3):1553-61. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9284322 9284322]
+
-
[[Category: Ban, C.]]
+
-
[[Category: Pan, B.]]
+
-
[[Category: Sundaralingam, M.]]
+
-
[[Category: Wahl, M.]]
+
-
[[Category: Double helix]]
+
-
[[Category: Flipped-out base]]
+
-
[[Category: Overhanging base]]
+
-
[[Category: Z-dna]]
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 20:16:05 2008''
+

Current revision

CRYSTAL STRUCTURE OF D(GCGCGCG) WITH 5'-OVERHANG G'S

PDB ID 331d

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/331d"
Personal tools