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Further Insights in the Binding Mode of Selective Inhibitors to Human PDE4D Enzyme Combining Docking and Molecular Dynamics

机译:相结合对接和分子动力学的人PDE4D酶的选择性抑制剂结合模式的进一步见解

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Abstract >Alzheimer′s disease has recently emerged as a possible field of application for PDE4D inhibitors (PDE4DIs). The great structure similarity among the various PDE4 isoforms and, furthermore, the lack of the full length crystal structure of the enzyme, impaired the rational design of new selective PDE4DIs. In this paper, with the aim of exploring new insights into the PDE4D binding, we tackled the problem by performing a computational study based on docking simulations combined with molecular dynamics (D‐MD). Our work uniquely identified the binding mode and the key residues involved in the interaction with a number of in‐house catechol iminoether derivatives, acting as PDE4DIs. Moreover, the new binding mode was tested using a series of analogues previously reported by us and it was used to confirm their key structural features to allow PDE4D inhibition. The binding model disclosed within the current computational study may prove to be useful to further advance the design and synthesis of novel, more potent and selective, PDE4D inhibitors. </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 xmlns =“http://www.wiley.com/namespaces/wiley”type =“main”xml:lang =“en”> <title type =“main”>抽象</ title> > alzheimer'最近患有PDE4D抑制剂(PDE4DIS)的可能施用领域。各种PDE4同种型之间的结构相似性很大,而且还缺乏酶的全长晶体结构,损害了新选择性PDE4DIS的合理设计。在本文中,目的是通过对基于对接模拟的基于分子动力学(D-MD)的计算研究进行计算研究,探讨了新的洞察力。我们的工作唯一地鉴定了与许多内部儿茶酚亚替酯衍生物相互作用的结合模式和关键残留物,其作用为PDE4DIS。此外,使用先前由我们报告的一系列类似物测试了新的结合模式,用来确认其关键结构特征以允许PDE4D抑制。当前计算研究中公开的结合模型可以证明是进一步推进新颖,更有效和选择性的PDE4D抑制剂的设计和合成的有用。</ 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-25225/'>《Molecular informatics》</a> <b style="margin: 0 2px;">|</b><span>2016年第9期</span><b style="margin: 0 2px;">|</b><span>共13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=DUrsi Pasqualina&option=202" target="_blank" rel="nofollow">DUrsi Pasqualina;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Guariento Sara&option=202" target="_blank" rel="nofollow">Guariento Sara;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Trombetti Gabriele&option=202" target="_blank" rel="nofollow">Trombetti Gabriele;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Orro Alessandro&option=202" target="_blank" rel="nofollow">Orro Alessandro;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Cichero Elena&option=202" target="_blank" rel="nofollow">Cichero Elena;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Milanesi Luciano&option=202" target="_blank" rel="nofollow">Milanesi Luciano;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Fossa Paola&option=202" target="_blank" rel="nofollow">Fossa Paola;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Bruno Olga&option=202" target="_blank" rel="nofollow">Bruno Olga;</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>Institute for Biomedical Technologies e National Research Council (ITB-CNR)Via Fratelli Cervi 93;</p> <p>Department of Pharmacy Section of Medicinal Chemistry School of Medical and Pharmaceutical;</p> <p>Institute for Biomedical Technologies e National Research Council (ITB-CNR)Via Fratelli Cervi 93;</p> <p>Institute for Biomedical Technologies e National Research Council (ITB-CNR)Via Fratelli Cervi 93;</p> <p>Department of Pharmacy Section of Medicinal Chemistry School of Medical and Pharmaceutical;</p> <p>Institute for Biomedical Technologies e National Research Council (ITB-CNR)Via Fratelli Cervi 93;</p> <p>Department of Pharmacy Section of Medicinal Chemistry School of Medical and Pharmaceutical;</p> <p>Department of Pharmacy Section of Medicinal Chemistry School of Medical and Pharmaceutical;</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/173.html" title="普通生物学">普通生物学;</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=Phosphodiesterases&option=203" rel="nofollow">Phosphodiesterases;</a> <a style="color: #3E7FEB;" href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=PDE4&option=203" rel="nofollow">PDE4;</a> <a style="color: #3E7FEB;" href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=PDE4D selective inhibitors&option=203" rel="nofollow">PDE4D selective inhibitors;</a> <a style="color: #3E7FEB;" href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=docking&option=203" rel="nofollow">docking;</a> <a style="color: #3E7FEB;" href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=molecular dynamics&option=203" rel="nofollow">molecular dynamics;</a> </p> <div class="translation"> 机译:磷酸二酯酶;PDE4;PDE4D选择性抑制剂;对接;分子动力学; </div> </li> </ul> </div> </div> <div class="literature cardcommon" id="literaturereference" style="display:none"> <div class="similarity "> <h3 class="all_title" id="enpatent111">引文网络</h3> <div class="referencetab clearfix"> <ul id="referencedaohang"> <li dataid="referenceul">参考文献</li> <li dataid="citationul">引证文献</li> <li dataid="commonreferenceul">共引文献</li> <li dataid="commoncitationul">同被引文献</li> <li dataid="tworeferenceul">二级参考文献</li> <li dataid="twocitationul">二级引证文献</li> </ul> </div> <div class="reference_details" id="referenceList"> <ul id="referenceul"></ul> <ul id="citationul"></ul> <ul id="commonreferenceul"></ul> <ul id="commoncitationul"></ul> <ul id="tworeferenceul"></ul> <ul id="twocitationul"></ul> </div> </div> </div> <div class="literature cardcommon"> <div class="similarity "> <h3 class="all_title" id="enpatent66">相似文献</h3> <div 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