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异叶苦素B:结合各向同性和各向异性核磁共振用于天然存在的环肽的构象分析

Heterophyllin B: Combining Isotropic and Anisotropic NMR for the Conformational Analysis of a Natural Occurring Cyclic Peptide.

作者信息

Ketzel Anton F, Hu Yang, Li Xiao-Lu, Li Jiaqian, Lei Xinxiang, Sun Han

机构信息

Research Unit of Structural Chemistry & Computational Biophysics, Leibniz-Forschungsinstitut für Molekulare Pharmakologie (FMP), Berlin, Germany.

Strukturelle Chemische Biologie und Cheminformatik, Institut für Chemie, Technische Universität Berlin, Berlin, Germany.

出版信息

Magn Reson Chem. 2025 May-Jun;63(5-6):417-423. doi: 10.1002/mrc.5523. Epub 2025 Apr 20.

Abstract

Heterophyllin B is a natural occurring cyclic peptide with diverse attributed bioactivities. NMR-based conformational analysis of cyclic peptides often poses a challenge due to limited isotropic solution-state NMR data. In this study, we combined isotropic and anisotropic NMR observables including J-coupling, NOEs, amide proton temperature coefficients, and residual dipolar couplings (RDCs), which enabled the determination of a minimal conformational ensemble of heterophyllin B in methanol at density functional theory (DFT) accuracy. For conformational sampling of a cyclic peptide with a high degree of conformational freedom, we proposed a computational strategy that combines the Conformer-Rotamer Ensemble Sampling Tool (CREST) with the Commandline Energetic SOrting (CENSO). This combined computational and NMR-based approach offers a robust framework for the conformational analysis of cyclic peptides.

摘要

异叶林B是一种具有多种生物活性的天然环状肽。由于各向同性溶液态核磁共振数据有限,基于核磁共振的环状肽构象分析常常面临挑战。在本研究中,我们结合了各向同性和各向异性核磁共振可观测量,包括J耦合、核Overhauser效应(NOE)、酰胺质子温度系数和残余偶极耦合(RDC),这使得我们能够在密度泛函理论(DFT)精度下确定异叶林B在甲醇中的最小构象集合。对于具有高度构象自由度的环状肽的构象采样,我们提出了一种将构象异构体-旋转异构体集合采样工具(CREST)与命令行能量排序(CENSO)相结合的计算策略。这种计算与基于核磁共振的联合方法为环状肽的构象分析提供了一个强大的框架。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5fe5/12053296/e1e3fd2c1fa0/MRC-63-417-g001.jpg

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