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==Crystal Structure Analysis of DNA Duplexes containing sulfoamide-bridged nucleic acid (SuNA-NMe)==
==Crystal Structure Analysis of DNA Duplexes containing sulfoamide-bridged nucleic acid (SuNA-NMe)==
<StructureSection load='5axf' size='340' side='right' caption='[[5axf]], [[Resolution|resolution]] 1.13&Aring;' scene=''>
<StructureSection load='5axf' size='340' side='right'caption='[[5axf]], [[Resolution|resolution]] 1.13&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[5axf]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AXF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5AXF FirstGlance]. <br>
<table><tr><td colspan='2'>[[5axf]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AXF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5AXF FirstGlance]. <br>
</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LST:[(1R,5R,7R,8S)-2-METHYL-7-[5-METHYL-2,4-BIS(OXIDANYLIDENE)PYRIMIDIN-1-YL]-8-OXIDANYL-3,3-BIS(OXIDANYLIDENE)-6-OXA-3$L^{6}-THIA-2-AZABICYCLO[3.2.1]OCTAN-5-YL]METHYL+DIHYDROGEN+PHOSPHATE'>LST</scene></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.13&#8491;</td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5axe|5axe]]</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=LST:[(1R,5R,7R,8S)-2-METHYL-7-[5-METHYL-2,4-BIS(OXIDANYLIDENE)PYRIMIDIN-1-YL]-8-OXIDANYL-3,3-BIS(OXIDANYLIDENE)-6-OXA-3$L^{6}-THIA-2-AZABICYCLO[3.2.1]OCTAN-5-YL]METHYL+DIHYDROGEN+PHOSPHATE'>LST</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5axf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5axf OCA], [http://pdbe.org/5axf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5axf RCSB], [http://www.ebi.ac.uk/pdbsum/5axf PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5axf ProSAT]</span></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=5axf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5axf OCA], [https://pdbe.org/5axf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5axf RCSB], [https://www.ebi.ac.uk/pdbsum/5axf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5axf ProSAT]</span></td></tr>
</table>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
A sulfonamide-bridged nucleic acid without an N-substituent (SuNA[NH]) was successfully synthesized. A comparison of the SuNA[NMe]- and SuNA[NH]-modified oligonucleotides revealed that the duplex-forming abilities of the SuNA[NMe]-modified oligonucleotides with complementary DNA and RNA were higher than those of the SuNA[NH]-modified oligonucleotides. The crystal structures of DNA duplexes containing a SuNA[NR] revealed that the helical structures of the two duplexes and hydration patterns around the bridge moiety were different. These results provide insights into hydration patterns and rationale for the high RNA affinity of SuNA-modified oligonucleotides.
Effect of an N-substituent in sulfonamide-bridged nucleic acid (SuNA) on hybridization ability and duplex structure.,Mitsuoka Y, Aoyama H, Kugimiya A, Fujimura Y, Yamamoto T, Waki R, Wada F, Tahara S, Sawamura M, Noda M, Hari Y, Obika S Org Biomol Chem. 2016 Jul 6;14(27):6531-8. doi: 10.1039/c6ob01051b. PMID:27296230<ref>PMID:27296230</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 5axf" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Aoyama, H]]
[[Category: Large Structures]]
[[Category: Fujimura, Y]]
[[Category: Synthetic construct]]
[[Category: Hari, Y]]
[[Category: Aoyama H]]
[[Category: Kugimiya, A]]
[[Category: Fujimura Y]]
[[Category: Mitsuoka, Y]]
[[Category: Hari Y]]
[[Category: Noda, M]]
[[Category: Kugimiya A]]
[[Category: Obika, S]]
[[Category: Mitsuoka Y]]
[[Category: Sawamura, M]]
[[Category: Noda M]]
[[Category: Tahara, S]]
[[Category: Obika S]]
[[Category: Wada, F]]
[[Category: Sawamura M]]
[[Category: Waki, R]]
[[Category: Tahara S]]
[[Category: Yamamoto, T]]
[[Category: Wada F]]
[[Category: A-form dna]]
[[Category: Waki R]]
[[Category: Antisense]]
[[Category: Yamamoto T]]
[[Category: Dna]]
[[Category: Sulfonamide-bridged nucleic acid]]
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