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6adv

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'''Unreleased structure'''
 
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The entry 6adv is ON HOLD
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==Crystal Structure Analysis of the duplex containing the S2T(2',4'-BNA/LNA)G mismatch pairs==
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<StructureSection load='6adv' size='340' side='right'caption='[[6adv]], [[Resolution|resolution]] 1.96&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[6adv]] 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=6ADV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6ADV FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.96&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=9V9:1-{2,5-anhydro-4-[(phosphonooxy)methyl]-alpha-L-lyxofuranosyl}-5-methyl-2-sulfanylidene-2,3-dihydropyrimidin-4(1H)-one'>9V9</scene></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=6adv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6adv OCA], [https://pdbe.org/6adv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6adv RCSB], [https://www.ebi.ac.uk/pdbsum/6adv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6adv ProSAT]</span></td></tr>
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</table>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Oligonucleotides modified with 2'- O,4'- C-spirocyclopropylene-bridged nucleic acid (scpBNA) exhibit excellent duplex-forming ability with their complementary single-stranded RNA (ssRNA). Here, we demonstrate that scpBNA bearing a 2-thiothymine (scpBNA-S(2)T) or 2-selenothymine (scpBNA-Se(2)T) nucleobase provides robust mismatch discrimination capabilities to oligonucleotides without compromising their high binding affinities toward the full complementary ssRNA. X-ray crystallographic analysis of a self-assembling oligonucleotide featuring 2',4'-BNA/LNA-2-thiothymine (2',4'-BNA/LNA-S(2)T, where 2',4'-BNA and LNA stand for "2'- O,4'- C-methylene-bridged nucleic acid" and "locked nucleic acid", respectively), a prototype of scpBNA-S(2)T, revealed that the 2-thiocarbonyl moiety plays a crucial role in the destabilization of thymine-guanine mismatched wobble base pairs.
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Authors: Aoyama, H.A., Habuchi, T.H., Yamaguchi, T.Y., Obika, S.O.
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Hybridization and Mismatch Discrimination Abilities of 2',4'-Bridged Nucleic Acids Bearing 2-Thiothymine or 2-Selenothymine Nucleobase.,Habuchi T, Yamaguchi T, Aoyama H, Horiba M, Ito KR, Obika S J Org Chem. 2019 Feb 1;84(3):1430-1439. doi: 10.1021/acs.joc.8b02863. Epub 2019, Jan 24. PMID:30632750<ref>PMID:30632750</ref>
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Description: Crystal Structure Analysis of the duplex containing the S2T(2',4'-BNA/LNA)G mismatch pairs
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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[[Category: Unreleased Structures]]
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</div>
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[[Category: Habuchi, T.H]]
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<div class="pdbe-citations 6adv" style="background-color:#fffaf0;"></div>
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[[Category: Aoyama, H.A]]
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== References ==
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[[Category: Yamaguchi, T.Y]]
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<references/>
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[[Category: Obika, S.O]]
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
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[[Category: Synthetic construct]]
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[[Category: Aoyama HA]]
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[[Category: Habuchi TH]]
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[[Category: Obika SO]]
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[[Category: Yamaguchi TY]]

Current revision

Crystal Structure Analysis of the duplex containing the S2T(2',4'-BNA/LNA)G mismatch pairs

PDB ID 6adv

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