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New page: left|200px<br /><applet load="1tne" size="450" color="white" frame="true" align="right" spinBox="true" caption="1tne" /> '''NMR STUDY OF Z-DNA AT PHYSIOLOGICAL SALT CON...
 
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[[Image:1tne.jpg|left|200px]]<br /><applet load="1tne" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1tne" />
'''NMR STUDY OF Z-DNA AT PHYSIOLOGICAL SALT CONDITIONS, MINIMIZED AVERAGE STRUCTURE'''<br />


==Overview==
==NMR STUDY OF Z-DNA AT PHYSIOLOGICAL SALT CONDITIONS, MINIMIZED AVERAGE STRUCTURE==
Various oligonucleotides containing 8-methylguanine (m8G) have been, synthesized and their structures and thermodynamic properties, investigated. Introduction Of M8G into DNA sequences markedly stabilizes, the Z conformation under low salt conditions. The hexamer d(CGC[M8G]CG)2, exhibits a CD spectrum characteristic of the Z conformation under, physiological salt conditions. The NOE-restrained refinement unequivocally, demonstrated that d(CGC[m8G]CG)2 adopts a Z structure with all guanines in, the syn conformation. The refined NMR structure is very similar to the Z, form crystal structure of d(CGCGCG)2, with a root mean square deviation of, 0.6 between the two structures. The contribution of m8G to the, stabilization of Z-DNA has been estimated from the mid-point NaCl, concentrations for the B-Z transition of various m8G-containing oligomers., The presence of m8G in d(CGC[m8G]CG)2 stabilizes the Z conformation by at, least deltaG = -0.8 kcal/mol relative to the unmodified hexamer. The Z, conformation was further stabilized by increasing the number of m8Gs, incorporated and destabilized by incorporating syn-A or syn-T, found, respectively in the (A,T)-containing alternating and non-alternating, pyrimidine-purine sequences. The results suggest that the chemically less, reactive m8G base is a useful agent for studying molecular interactions of, Z-DNA or other DNA structures that incorporate syn-G conformation.
<StructureSection load='1tne' size='340' side='right'caption='[[1tne]]' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1tne]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TNE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1TNE FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8MG:8-METHYL-2-DEOXYGUANOSINE-5-MONOPHOSPHATE'>8MG</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=1tne FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1tne OCA], [https://pdbe.org/1tne PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1tne RCSB], [https://www.ebi.ac.uk/pdbsum/1tne PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1tne ProSAT]</span></td></tr>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Various oligonucleotides containing 8-methylguanine (m8G) have been synthesized and their structures and thermodynamic properties investigated. Introduction Of M8G into DNA sequences markedly stabilizes the Z conformation under low salt conditions. The hexamer d(CGC[M8G]CG)2 exhibits a CD spectrum characteristic of the Z conformation under physiological salt conditions. The NOE-restrained refinement unequivocally demonstrated that d(CGC[m8G]CG)2 adopts a Z structure with all guanines in the syn conformation. The refined NMR structure is very similar to the Z form crystal structure of d(CGCGCG)2, with a root mean square deviation of 0.6 between the two structures. The contribution of m8G to the stabilization of Z-DNA has been estimated from the mid-point NaCl concentrations for the B-Z transition of various m8G-containing oligomers. The presence of m8G in d(CGC[m8G]CG)2 stabilizes the Z conformation by at least deltaG = -0.8 kcal/mol relative to the unmodified hexamer. The Z conformation was further stabilized by increasing the number of m8Gs incorporated and destabilized by incorporating syn-A or syn-T, found respectively in the (A,T)-containing alternating and non-alternating pyrimidine-purine sequences. The results suggest that the chemically less reactive m8G base is a useful agent for studying molecular interactions of Z-DNA or other DNA structures that incorporate syn-G conformation.


==About this Structure==
Synthesis, structure and thermodynamic properties of 8-methylguanine-containing oligonucleotides: Z-DNA under physiological salt conditions.,Sugiyama H, Kawai K, Matsunaga A, Fujimoto K, Saito I, Robinson H, Wang AH Nucleic Acids Res. 1996 Apr 1;24(7):1272-8. PMID:8614630<ref>PMID:8614630</ref>
1TNE is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1TNE OCA].


==Reference==
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
Synthesis, structure and thermodynamic properties of 8-methylguanine-containing oligonucleotides: Z-DNA under physiological salt conditions., Sugiyama H, Kawai K, Matsunaga A, Fujimoto K, Saito I, Robinson H, Wang AH, Nucleic Acids Res. 1996 Apr 1;24(7):1272-8. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=8614630 8614630]
</div>
[[Category: Protein complex]]
<div class="pdbe-citations 1tne" style="background-color:#fffaf0;"></div>
[[Category: Fujimoto, K.]]
[[Category: Kawai, K.]]
[[Category: Matsunaga, A.]]
[[Category: Robinson, H.]]
[[Category: Saito, I.]]
[[Category: Sugiyama, H.]]
[[Category: Wang, A.H.J.]]
[[Category: z-dna]]


''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 25 02:27:09 2007''
==See Also==
*[[Z-DNA|Z-DNA]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Fujimoto K]]
[[Category: Kawai K]]
[[Category: Matsunaga A]]
[[Category: Robinson H]]
[[Category: Saito I]]
[[Category: Sugiyama H]]
[[Category: Wang AH-J]]
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