NanoTube Construct: A web tool for the digital construction of nanotubes of single-layer materials and the calculation of their atomistic descriptors powered by Enalos Cloud Platform

IF 4.4 2区 生物学 Q2 BIOCHEMISTRY & MOLECULAR BIOLOGY
Panagiotis D. Kolokathis , Dimitrios Zouraris , Nikolaos K. Sidiropoulos , Andreas Tsoumanis , Georgia Melagraki , Iseult Lynch , Antreas Afantitis
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Abstract

NanoTube Construct is a web tool for the digital construction of nanotubes based on real and hypothetical single-layer materials including carbon-based materials such as graphene, graphane, graphyne polymorphs, graphidiyene and non-carbon materials such as silicene, germanene, boron nitride, hexagonal bilayer silica, haeckelite silica, molybdene disulfide and tungsten disulfide. Contrary to other available tools, NanoTube Construct has the following features: a) it is not limited to zero thickness materials with specific symmetry, b) it applies energy minimisation to the geometrically constructed Nanotubes to generate realistic ones, c) it derives atomistic descriptors (e.g., the average potential energy per atom, the average coordination number, etc.), d) it provides the primitive unit cell of the constructed Nanotube which corresponds to the selected rolling vector (i.e., the direction in which the starting nanosheet is rolled to form a tube), e) it calculates whether the Nanotube or its corresponding nanosheet is more energetically stable and f) it allows negative chirality indexes. Application of NanoTube Construct for the construction of energy minimised graphane and molybdenum disulfide nanotubes are presented, showcasing the tool's capability. NanoTube Construct is freely accessible through the Enalos Cloud Platform (https://enaloscloud.novamechanics.com/diagonal/nanotube/).
纳米管构建:由 Enalos 云平台驱动的单层材料纳米管数字构建及其原子描述符计算网络工具
NanoTube Construct 是一种基于真实和假设单层材料的纳米管数字构建网络工具,这些材料包括碳基材料,如石墨烯、石墨烷、石墨炔多晶体、石墨二烯和非碳材料,如硅烯、锗烯、氮化硼、六角双层二氧化硅、白炭黑二氧化硅、二硫化钼和二硫化钨。与其他可用工具不同,NanoTube Construct 具有以下特点:a) 它不局限于具有特定对称性的零厚度材料;b) 它将能量最小化应用于几何构造的纳米管,以生成逼真的纳米管;c) 它可得出原子描述符(例如,每个原子的平均势能、每个原子的平均势能、每个原子的平均势能、每个原子的平均势能、每个原子的平均势能、每个原子的平均势能、每个原子的平均势能、每个原子的平均势能、每个原子的平均势能)、每个原子的平均势能、平均配位数等),d) 提供与所选滚动矢量(即起始纳米片滚动形成管子的方向)相对应的纳米管原始单元格,e) 计算纳米管或其相应纳米片的能量稳定性,f) 允许负手性指数。介绍了 NanoTube Construct 在构建能量最小化的石墨烷和二硫化钼纳米管中的应用,展示了该工具的能力。NanoTube Construct 可通过 Enalos 云平台 (https://enaloscloud.novamechanics.com/diagonal/nanotube/) 免费访问。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
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来源期刊
Computational and structural biotechnology journal
Computational and structural biotechnology journal Biochemistry, Genetics and Molecular Biology-Biophysics
CiteScore
9.30
自引率
3.30%
发文量
540
审稿时长
6 weeks
期刊介绍: Computational and Structural Biotechnology Journal (CSBJ) is an online gold open access journal publishing research articles and reviews after full peer review. All articles are published, without barriers to access, immediately upon acceptance. The journal places a strong emphasis on functional and mechanistic understanding of how molecular components in a biological process work together through the application of computational methods. Structural data may provide such insights, but they are not a pre-requisite for publication in the journal. Specific areas of interest include, but are not limited to: Structure and function of proteins, nucleic acids and other macromolecules Structure and function of multi-component complexes Protein folding, processing and degradation Enzymology Computational and structural studies of plant systems Microbial Informatics Genomics Proteomics Metabolomics Algorithms and Hypothesis in Bioinformatics Mathematical and Theoretical Biology Computational Chemistry and Drug Discovery Microscopy and Molecular Imaging Nanotechnology Systems and Synthetic Biology
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