Institute of Computing Science, Poznan University of Technology, 60-965 Poznan, Poland.
Poznan Supercomputing and Networking Center, 61-131 Poznan, Poland.
Bioinformatics. 2022 Sep 2;38(17):4200-4205. doi: 10.1093/bioinformatics/btac484.
Knowledge of the 3D structure of RNA supports discovering its functions and is crucial for designing drugs and modern therapeutic solutions. Thus, much attention is devoted to experimental determination and computational prediction targeting the global fold of RNA and its local substructures. The latter include multi-branched loops-functionally significant elements that highly affect the spatial shape of the entire molecule. Unfortunately, their computational modeling constitutes a weak point of structural bioinformatics. A remedy for this is in collecting these motifs and analyzing their features.
RNAloops is a self-updating database that stores multi-branched loops identified in the PDB-deposited RNA structures. A description of each loop includes angular data-planar and Euler angles computed between pairs of adjacent helices to allow studying their mutual arrangement in space. The system enables search and analysis of multiloops, presents their structure details numerically and visually, and computes data statistics.
RNAloops is freely accessible at https://rnaloops.cs.put.poznan.pl.
Supplementary data are available at Bioinformatics online.
了解 RNA 的 3D 结构有助于发现其功能，这对于设计药物和现代治疗方案至关重要。因此，人们非常关注针对 RNA 整体折叠及其局部亚结构的实验测定和计算预测。后者包括多分支环——功能重要的元素，它们极大地影响整个分子的空间形状。不幸的是，它们的计算建模是结构生物信息学的一个弱点。解决这个问题的方法是收集这些模体并分析它们的特征。
RNAloops 是一个自我更新的数据库，它存储了在 PDB 中存储的 RNA 结构中识别出的多分支环。每个环的描述都包括角度数据——在相邻螺旋之间计算的平面角和欧拉角，以允许研究它们在空间中的相互排列。该系统允许搜索和分析多环，并以数字和可视化的方式显示其结构细节，并计算数据统计信息。
RNAloops 可在 https://rnaloops.cs.put.poznan.pl 免费访问。
补充数据可在 Bioinformatics 在线获得。
Zotero 插件
