Literature DB >> 28006916

Synergistic Combination of CASE Algorithms and DFT Chemical Shift Predictions: A Powerful Approach for Structure Elucidation, Verification, and Revision.

Alexei V Buevich1, Mikhail E Elyashberg2.   

Abstract

Structure elucidation of complex natural products and new organic compounds remains a challenging problem. To support this endeavor, CASE (computer-assisted structure elucidation) expert systems were developed. These systems are capable of generating a set of all possible structures consistent with an ensemble of 2D NMR data followed by selection of the most probable structure on the basis of empirical NMR chemical shift prediction. However, in some cases, empirical chemical shift prediction is incapable of distinguishing the correct structure. Herein, we demonstrate for the first time that the combination of CASE and density functional theory (DFT) methods for NMR chemical shift prediction allows the determination of the correct structure even in difficult situations. An expert system, ACD/Structure Elucidator, was used for the CASE analysis. This approach has been tested on three challenging natural products: aquatolide, coniothyrione, and chiral epoxyroussoenone. This work has demonstrated that the proposed synergistic approach is an unbiased, reliable, and very efficient structure verification and de novo structure elucidation method that can be applied to difficult structural problems when other experimental methods would be difficult or impossible to use.

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Year:  2016        PMID: 28006916     DOI: 10.1021/acs.jnatprod.6b00799

Source DB:  PubMed          Journal:  J Nat Prod        ISSN: 0163-3864            Impact factor:   4.050


  11 in total

Review 1.  Recent trends in the structural revision of natural products.

Authors:  Bhuwan Khatri Chhetri; Serge Lavoie; Anne Marie Sweeney-Jones; Julia Kubanek
Journal:  Nat Prod Rep       Date:  2018-06-20       Impact factor: 13.423

2.  Characterization by Empirical and Computational Methods of Dictyospiromide, an Intriguing Antioxidant Alkaloid from the Marine Alga Dictyota coriacea.

Authors:  Pengcheng Yan; Ge Li; Chaojie Wang; Jianzhang Wu; Zhongmin Sun; Gary E Martin; Xiao Wang; Mikhail Reibarkh; Josep Saurí; Kirk R Gustafson
Journal:  Org Lett       Date:  2019-09-06       Impact factor: 6.005

3.  Unequivocal determination of complex molecular structures using anisotropic NMR measurements.

Authors:  Yizhou Liu; Josep Saurí; Emily Mevers; Mark W Peczuh; Henk Hiemstra; Jon Clardy; Gary E Martin; R Thomas Williamson
Journal:  Science       Date:  2017-04-07       Impact factor: 47.728

4.  The DP5 probability, quantification and visualisation of structural uncertainty in single molecules.

Authors:  Alexander Howarth; Jonathan M Goodman
Journal:  Chem Sci       Date:  2022-02-25       Impact factor: 9.825

Review 5.  The value of universally available raw NMR data for transparency, reproducibility, and integrity in natural product research.

Authors:  James B McAlpine; Shao-Nong Chen; Andrei Kutateladze; John B MacMillan; Giovanni Appendino; Andersson Barison; Mehdi A Beniddir; Maique W Biavatti; Stefan Bluml; Asmaa Boufridi; Mark S Butler; Robert J Capon; Young H Choi; David Coppage; Phillip Crews; Michael T Crimmins; Marie Csete; Pradeep Dewapriya; Joseph M Egan; Mary J Garson; Grégory Genta-Jouve; William H Gerwick; Harald Gross; Mary Kay Harper; Precilia Hermanto; James M Hook; Luke Hunter; Damien Jeannerat; Nai-Yun Ji; Tyler A Johnson; David G I Kingston; Hiroyuki Koshino; Hsiau-Wei Lee; Guy Lewin; Jie Li; Roger G Linington; Miaomiao Liu; Kerry L McPhail; Tadeusz F Molinski; Bradley S Moore; Joo-Won Nam; Ram P Neupane; Matthias Niemitz; Jean-Marc Nuzillard; Nicholas H Oberlies; Fernanda M M Ocampos; Guohui Pan; Ronald J Quinn; D Sai Reddy; Jean-Hugues Renault; José Rivera-Chávez; Wolfgang Robien; Carla M Saunders; Thomas J Schmidt; Christoph Seger; Ben Shen; Christoph Steinbeck; Hermann Stuppner; Sonja Sturm; Orazio Taglialatela-Scafati; Dean J Tantillo; Robert Verpoorte; Bin-Gui Wang; Craig M Williams; Philip G Williams; Julien Wist; Jian-Min Yue; Chen Zhang; Zhengren Xu; Charlotte Simmler; David C Lankin; Jonathan Bisson; Guido F Pauli
Journal:  Nat Prod Rep       Date:  2018-07-13       Impact factor: 13.423

6.  Model-Free Approach for the Configurational Analysis of Marine Natural Products.

Authors:  Matthias Köck; Michael Reggelin; Stefan Immel
Journal:  Mar Drugs       Date:  2021-05-21       Impact factor: 5.118

Review 7.  Computational Methodologies in the Exploration of Marine Natural Product Leads.

Authors:  Florbela Pereira; Joao Aires-de-Sousa
Journal:  Mar Drugs       Date:  2018-07-13       Impact factor: 5.118

8.  A Volumetric Analysis of the 1H NMR Chemical Shielding in Supramolecular Systems.

Authors:  Jiří Czernek; Jiří Brus
Journal:  Int J Mol Sci       Date:  2021-03-24       Impact factor: 5.923

9.  Unequivocal structure confirmation of a breitfussin analog by anisotropic NMR measurements.

Authors:  Ikenna E Ndukwe; Yu-Hong Lam; Sunil K Pandey; Bengt E Haug; Annette Bayer; Edward C Sherer; Kirill A Blinov; R Thomas Williamson; Johan Isaksson; Mikhail Reibarkh; Yizhou Liu; Gary E Martin
Journal:  Chem Sci       Date:  2020-09-21       Impact factor: 9.825

10.  NMR-Based Configurational Assignments of Natural Products: Gibbs Sampling and Bayesian Inference Using Floating Chirality Distance Geometry Calculations.

Authors:  Stefan Immel; Matthias Köck; Michael Reggelin
Journal:  Mar Drugs       Date:  2021-12-22       Impact factor: 5.118

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