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[[Image:1woe.gif|left|200px]]<br /><applet load="1woe" size="350" color="white" frame="true" align="right" spinBox="true"
caption="1woe, resolution 1.5&Aring;" />
'''X-ray structure of a Z-DNA hexamer d(CGCGCG)'''<br />


==Overview==
==X-ray structure of a Z-DNA hexamer d(CGCGCG)==
In order to reveal the hydration structure of Z-DNA, a neutron diffraction study has been carried out at 1.8 A resolution on a Z-DNA hexamer d(CGCGCG). Neutron diffraction data were collected with the BIX-3 single-crystal diffractometer at the JRR-3 reactor in the Japan Atomic Energy Research Institute (JAERI) using a large crystal (1.6 mm3) obtained from D2O solution. It has been found that almost all the guanine bases have participated in H/D exchange at the C8-H8 group, consistent with the acidic nature of this bond. 44 water molecules were found in the nuclear density maps, of which 29 showed the entire contour of all three atoms (D-O-D). The remaining 15 water molecules had a simple spherical shape, indicating that they were rotationally disordered. An interesting relationship was found between the orientational disorder of the water molecules and their locations. Almost all water molecules in the minor groove were well ordered in the crystal, while 40% of the water molecules in the major groove were rotationally disordered. The hydrogen-bonding networks in the hydration shells have two structural aspects: flexibility and regularity.
<StructureSection load='1woe' size='340' side='right'caption='[[1woe]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1woe]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WOE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1WOE FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.5&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DOD:DEUTERATED+WATER'>DOD</scene>, <scene name='pdbligand=SPM:SPERMINE'>SPM</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1woe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1woe OCA], [https://pdbe.org/1woe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1woe RCSB], [https://www.ebi.ac.uk/pdbsum/1woe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1woe ProSAT]</span></td></tr>
</table>


==About this Structure==
==See Also==
1WOE is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=SPM:'>SPM</scene> and <scene name='pdbligand=DOD:'>DOD</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WOE OCA].
*[[Z-DNA|Z-DNA]]
 
__TOC__
==Reference==
</StructureSection>
The hydration structure of a Z-DNA hexameric duplex determined by a neutron diffraction technique., Chatake T, Tanaka I, Umino H, Arai S, Niimura N, Acta Crystallogr D Biol Crystallogr. 2005 Aug;61(Pt 8):1088-98. Epub 2005, Jul 20. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16041074 16041074]
[[Category: Large Structures]]
[[Category: Protein complex]]
[[Category: Arai S]]
[[Category: Arai, S.]]
[[Category: Chatake T]]
[[Category: Chatake, T.]]
[[Category: Niimura N]]
[[Category: Niimura, N.]]
[[Category: Tanaka I]]
[[Category: Tanaka, I.]]
[[Category: Umino H]]
[[Category: Umino, H.]]
[[Category: DOD]]
[[Category: SPM]]
[[Category: heavy water]]
[[Category: spermine]]
[[Category: z-dna]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 15:46:31 2008''

Latest revision as of 16:33, 13 March 2024

X-ray structure of a Z-DNA hexamer d(CGCGCG)X-ray structure of a Z-DNA hexamer d(CGCGCG)

Structural highlights

1woe is a 2 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.5Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

See Also

1woe, resolution 1.50Å

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