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SpectroIBIS:用于多构象量子化学光谱计算的自动数据处理

SpectroIBIS: Automated Data Processing for Multiconformer Quantum Chemical Spectroscopic Calculations.

作者信息

Bulcock Brodie W, Chooi Yit-Heng, Flematti Gavin R

机构信息

School of Molecular Sciences, The University of Western Australia, Crawley, WA 6009, Australia.

出版信息

J Nat Prod. 2025 Feb 28;88(2):495-501. doi: 10.1021/acs.jnatprod.4c01321. Epub 2025 Feb 7.

Abstract

Quantum chemical spectroscopic calculations have grown increasingly popular in natural products research for aiding the elucidation of chemical structures, especially their stereochemical configurations. These calculations have become faster with modern computational speeds, but subsequent data handling, inspection, and presentation remain key bottlenecks for many researchers. In this article, we introduce the SpectroIBIS computer program as a user-friendly tool to automate tedious tasks commonly encountered in this workflow. Through a simple graphical user interface, researchers can drag and drop Gaussian or ORCA output files to produce Boltzmann-averaged ECD, VCD, UV-vis and IR data, optical rotations, and/or H and C NMR chemical shifts in seconds. Also produced are formatted, publication-quality supplementary data tables containing conformer energies and atomic coordinates, saved to a DOCX file compatible with Microsoft Word and LibreOffice. Importantly, SpectroIBIS can assist researchers in finding common calculation issues by automatically checking for redundant conformers and imaginary frequencies. Additional useful features include recognition of conformer energy recalculations at a higher theory level, and automated generation of input files for quantum chemistry programs with optional exclusion of high-energy conformers. Lastly, we demonstrate the applicability of SpectroIBIS with spectroscopic calculations for five natural products. SpectroIBIS is open-source software available as a free desktop application (https://github.com/bbulcock/SpectroIBIS).

摘要

量子化学光谱计算在天然产物研究中越来越受欢迎,有助于阐明化学结构,特别是其立体化学构型。随着现代计算速度的提高,这些计算变得更快,但后续的数据处理、检查和呈现仍然是许多研究人员面临的关键瓶颈。在本文中,我们介绍了SpectroIBIS计算机程序,它是一个用户友好的工具,可自动执行此工作流程中常见的繁琐任务。通过简单的图形用户界面,研究人员可以拖放高斯或ORCA输出文件,在几秒钟内生成玻尔兹曼平均ECD、VCD、紫外可见和红外数据、旋光性以及/或H和C NMR化学位移。还会生成格式化的、符合发表要求的补充数据表,其中包含构象体能量和原子坐标,并保存为与Microsoft Word和LibreOffice兼容的DOCX文件。重要的是,SpectroIBIS可以通过自动检查冗余构象体和虚频来帮助研究人员发现常见的计算问题。其他有用的功能包括识别更高理论水平下的构象体能量重新计算,以及自动生成量子化学程序的输入文件,并可选择排除高能构象体。最后,我们展示了SpectroIBIS在五种天然产物光谱计算中的适用性。SpectroIBIS是开源软件,可作为免费桌面应用程序获取(https://github.com/bbulcock/SpectroIBIS)。

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