Construction of a Holliday Junction in Small Circular DNA Molecules for Stable Motifs and Two‐Dimensional Lattices

Guo Xin; Wang Xue‐Mei; Wei Shuai; Xiao Shou‐Jun

摘要

Abstract >Design rules for DNA nanotechnology have been mostly learnt from using linear single‐stranded (ss) DNA as the source material. For example, the core structure of a typical DAO (double crossover, antiparallel, odd half‐turns) tile for assembling 2D lattices is constructed from only two linear ss‐oligonucleotide scaffold strands, similar to two ropes making a square knot. Herein, a new type of coupled DAO (cDAO) tile and 2D lattices of small circular ss‐oligonucleotides as scaffold strands and linear ss‐oligonucleotides as staple strands are reported. A cDAO tile of cDAO‐c64nt (c64nt: circular 64 nucleotides), shaped as a solid parallelogram, is constructed with a Holliday junction (HJ) at the center and two HJs at both poles of a c64nt; similarly, cDAO‐c84nt, shaped as a crossed quadrilateral composed of two congruent triangles, is formed with a HJ at the center and four three‐way junctions at the corners of a c84nt. Perfect 2D lattices were assembled from cDAO tiles: infinite nanostructures of nanoribbons, nanotubes, and nanorings, and finite nanostructures. The structural relationship between the visible lattices imaged by AFM and the corresponding invisible secondary and tertiary molecular structures of HJs, inclination angle of hydrogen bonds against the double‐helix axis, and the chirality of the tile can be interpreted very well. This work could shed new light on DNA nanotechnology with unique circular tiles. </abstract> </span> <span class="z_kbtn z_kbtnclass hoverxs" style="display: none;">展开▼</span> </div> <div class="translation abstracttxt"> <span class="zhankaihshouqi fivelineshidden" id="abstract"> <span>机译：</span><Abstract Type =“Main”XML：Lang =“en”> <标题类型=“main”>抽象</ title> > DNA纳米技术的设计规则主要从使用线性单链（SS）DNA作为源材料。例如，用于组装2D格子的典型DAO（双交叉，反平行，奇数半转机）瓦片的核心结构由仅两种线性SS-寡核苷酸支架股线构成，类似于制造方形结的两个绳索。这里，报道了一种新型的偶联DAO（CDAO）瓷砖和2D晶片的小圆形SS-寡核苷酸作为支架链和线性SS-寡核苷酸作为短纤维。 CdaO-C64NT（C64NT：圆形64核苷酸）的Cdao瓦片，形状为固体平行四边形，在中心的Holliday结（HJ）和C64NT两极的两个HJ构建;类似地，作为由两个一致三角形组成的交叉四边形的CDaO-C84NT形成在中心的HJ和C84NT的角落中的四个三通连接。完美的2D格子由CDao瓦片组装：纳米波纹，纳米管和纳米的无限纳米结构，以及有限纳米结构。 AFM成像的可见格与HJS的相应不可见的次级和三级分子结构之间的结构关系，氢键对双螺旋轴的倾斜角度，并且瓦片的手性可以很好地解释。这项工作可以用独特的圆形瓷砖对DNA纳米技术的新光线缩小。</ p> </摘要> </span> <span class="z_kbtn z_kbtnclass hoverxs" style="display: none;">展开▼</span> </div> </div> <div class="record"> <h2 class="all_title" id="enpatent33" >著录项</h2> <ul> <li> <span class="lefttit">来源</span> <div style="width: 86%;vertical-align: text-top;display: inline-block;"> <a href='/journal-foreign-16039/'>《Chembiochem: A European journal of chemical biology》</a> <b style="margin: 0 2px;">|</b><span>2018年第13期</span><b style="margin: 0 2px;">|</b><span>共7页</span> </div> </li> <li> <div class="author"> <span class="lefttit">作者</span> <p id="fAuthorthree" class="threelineshidden zhankaihshouqi"> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Guo Xin&option=202" target="_blank" rel="nofollow">Guo Xin;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Wang Xue‐Mei&option=202" target="_blank" rel="nofollow">Wang Xue‐Mei;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Wei Shuai&option=202" target="_blank" rel="nofollow">Wei Shuai;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Xiao Shou‐Jun&option=202" target="_blank" rel="nofollow">Xiao Shou‐Jun;</a> </p> <span class="z_kbtnclass z_kbtnclassall hoverxs" id="zkzz" style="display: none;">展开▼</span> </div> </li> <li> <div style="display: flex;"> <span class="lefttit">作者单位</span> <div style="position: relative;margin-left: 3px;max-width: 639px;"> <div class="threelineshidden zhankaihshouqi" id="fOrgthree"> <p>State Key Laboratory of Coordination ChemistryNanjing University163 Xianlin Avenue Nanjing 210023 P.R. China;</p> <p>State Key Laboratory of Coordination ChemistryNanjing University163 Xianlin Avenue Nanjing 210023 P.R. China;</p> <p>Department of ChemistryUniversity of MichiganAnn Arbor Michigan 48109 USA;</p> <p>State Key Laboratory of Coordination ChemistryNanjing University163 Xianlin Avenue Nanjing 210023 P.R. China;</p> </div> <span class="z_kbtnclass z_kbtnclassall hoverxs" id="zhdw" style="display: none;">展开▼</span> </div> </div> </li> <li > <span class="lefttit">收录信息</span> <span style="width: 86%;vertical-align: text-top;display: inline-block;"></span> </li> <li> <span class="lefttit">原文格式</span> <span>PDF</span> </li> <li> <span class="lefttit">正文语种</span> <span>eng</span> </li> <li> <span class="lefttit">中图分类</span> <span><a href="https://www.zhangqiaokeyan.com/clc/179.html" title="分子生物学">分子生物学;</a></span> </li> <li class="antistop"> <span class="lefttit">关键词</span> <p style="width: 86%;vertical-align: text-top;"> <a style="color: #3E7FEB;" href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=DNA structures&option=203" rel="nofollow">DNA structures;</a> <a style="color: #3E7FEB;" href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=nanotechnology&option=203" rel="nofollow">nanotechnology;</a> <a style="color: #3E7FEB;" href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=noncovalent interactions&option=203" rel="nofollow">noncovalent interactions;</a> <a style="color: #3E7FEB;" href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=self-assembly&option=203" rel="nofollow">self-assembly;</a> <a style="color: #3E7FEB;" href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=structure elucidation&option=203" rel="nofollow">structure elucidation;</a> </p> <div class="translation"> 机译：DNA结构;纳米技术;非价互动;自组装;结构阐明; </div> </li> </ul> </div> </div> <div class="literature cardcommon"> <div class="similarity "> <h3 class="all_title" id="enpatent66">相似文献</h3> <div class="similaritytab clearfix"> <ul> <li class="active" >外文文献</li> <li >中文文献</li> <li >专利</li> </ul> </div> <div class="similarity_details"> <ul > <li> <div> <b>1. </b><a class="enjiyixqcontent" href="/journal-foreign-detail/0704022055338.html">Construction of a Holliday Junction in Small Circular DNA Molecules for Stable Motifs and Two‐Dimensional Lattices</a> <b>[J]</b> . <span> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Guo Xin&option=202" target="_blank" rel="nofollow" class="tuijian_auth tuijian_authcolor">Guo Xin,</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Wang Xue‐Mei&option=202" target="_blank" rel="nofollow" class="tuijian_auth tuijian_authcolor">Wang Xue‐Mei,</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Wei Shuai&option=202" target="_blank" rel="nofollow" class="tuijian_auth tuijian_authcolor">Wei Shuai,</a> <a href="/journal-foreign-16039/" target="_blank" rel="nofollow" class="tuijian_authcolor">Chembiochem: A European journal of chemical biology .</a> <span>2018</span><span>,第13期</span> </span> </div> <p class="zwjiyix translation" style="max-width: initial;height: auto;word-break: break-all;white-space: initial;text-overflow: initial;overflow: initial;"> <span>机译：在小圆形DNA分子中施工稳定主题和二维格子的圆圆形DNA分子中的施工</span> </p> </li> <li> <div> <b>2. </b><a class="enjiyixqcontent" href="/journal-foreign-detail/0704027903287.html">Single-Molecule Imaging Reveals Conformational Manipulation of Holliday Junction DNA by the Junction Processing Protein RuvA</a> <b>[J]</b> . <span> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Gibbs Dalton R.&option=202" target="_blank" rel="nofollow" class="tuijian_auth tuijian_authcolor">Gibbs Dalton R.,</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Dhakal Soma&option=202" target="_blank" rel="nofollow" class="tuijian_auth tuijian_authcolor">Dhakal Soma </a> <a href="/journal-foreign-14809/" target="_blank" rel="nofollow" class="tuijian_authcolor">Biochemistry .</a> <span>2018</span><span>,第26期</span> </span> </div> <p class="zwjiyix translation" style="max-width: initial;height: auto;word-break: break-all;white-space: initial;text-overflow: initial;overflow: initial;"> <span>机译：单分子成像通过结释放蛋白Ruva揭示了Holliday结DNA的构象操纵</span> </p> </li> <li> <div> <b>3. </b><a class="enjiyixqcontent" href="/journal-foreign-detail/070402822147.html">Ligand Bridging of the DNA Holliday Junction: Molecular Recognition of a Stacked-X Four-Way Junction by a Small Molecule</a> <b>[J]</b> . <span> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Anna L. 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