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托马霉素非核糖体肽合成酶双结构域IMLV甲基基团的核磁共振化学位移归属

NMR chemical shift assignment of the IMLV methyl groups of a di-domain of the Tomaymycin non-ribosomal peptide synthetase.

作者信息

Kirkpatrick John P, Karanth Megha N, Carlomagno Teresa

机构信息

School of Biosciences, College of Life and Environmental Sciences, University of Birmingham, Birmingham, B15 2TT, UK.

Institute of Organic Chemistry and Centre of Biomolecular Drug Research, Leibniz University of Hannover, Schneiderberg 38, 30167, Hannover, Germany.

出版信息

Biomol NMR Assign. 2025 Jun;19(1):153-164. doi: 10.1007/s12104-025-10231-8. Epub 2025 Apr 25.

DOI:10.1007/s12104-025-10231-8
PMID:40278976
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC12116705/
Abstract

Non-ribosomal peptide synthetases (NRPSs) are macromolecular enzymatic complexes responsible for the biosynthesis of an array of microbial natural products, many of which have important applications for human health. The nature of the NRPS machinery, which has been likened to an assembly line, should be amenable to bio-engineering efforts directed towards efficient synthesis of novel and tailored molecules. However, the success of such endeavours depends on a detailed understanding of the mechanistic principles governing the various steps in the peptide assembly-line. Here, we report the near-complete assignment of the Ile, Met, Leu and Val methyl-groups of the 59-kDa adaptor-condensation di-domain (BN-BC) from the Tomaymycin NRPS. These assignments will provide the foundation for future NMR studies of the complex dynamic behaviour of the condensation domain both in isolation and in the context of the enzymatic cycle, which will themselves form the basis for developing a complete mechanistic description of the central condensation reaction in this prototypical NRPS.

摘要

非核糖体肽合成酶(NRPSs)是一种大分子酶复合物,负责合成一系列微生物天然产物,其中许多对人类健康具有重要应用价值。NRPS机制的本质类似于一条装配线,应该适合进行旨在高效合成新型定制分子的生物工程研究。然而,此类努力的成功取决于对肽装配线各个步骤所遵循的机制原理的详细理解。在此,我们报告了来自托马霉素NRPS的59 kDa衔接子-缩合双结构域(BN-BC)中异亮氨酸、甲硫氨酸、亮氨酸和缬氨酸甲基基团的近乎完整归属。这些归属将为未来对缩合结构域在分离状态下以及酶促循环背景下的复杂动态行为进行核磁共振研究奠定基础,而这些研究本身将为全面描述这种典型NRPS中的核心缩合反应的机制提供依据。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4550/12116705/ff5351c8a9a9/12104_2025_10231_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4550/12116705/c8f4e744c7b3/12104_2025_10231_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4550/12116705/266592a186bc/12104_2025_10231_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4550/12116705/249acd5d8ec8/12104_2025_10231_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4550/12116705/ff5351c8a9a9/12104_2025_10231_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4550/12116705/c8f4e744c7b3/12104_2025_10231_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4550/12116705/266592a186bc/12104_2025_10231_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4550/12116705/249acd5d8ec8/12104_2025_10231_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4550/12116705/ff5351c8a9a9/12104_2025_10231_Fig4_HTML.jpg

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本文引用的文献

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Sci Adv. 2024 Jun 21;10(25):eadm9404. doi: 10.1126/sciadv.adm9404. Epub 2024 Jun 19.
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Structural advances toward understanding the catalytic activity and conformational dynamics of modular nonribosomal peptide synthetases.朝着理解模块化非核糖体肽合成酶的催化活性和构象动力学的结构进展。
Nat Prod Rep. 2023 Sep 20;40(9):1550-1582. doi: 10.1039/d3np00003f.
3
Global protein dynamics as communication sensors in peptide synthetase domains.
作为肽合成酶结构域中通信传感器的全局蛋白质动力学
Sci Adv. 2022 Jul 15;8(28):eabn6549. doi: 10.1126/sciadv.abn6549.
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Structures of a dimodular nonribosomal peptide synthetase reveal conformational flexibility.二模块非核糖体肽合成酶的结构揭示了构象灵活性。
Science. 2019 Nov 8;366(6466). doi: 10.1126/science.aaw4388.
5
Total Biosynthesis of the Pyrrolo[4,2]benzodiazepine Scaffold Tomaymycin on an In Vitro Reconstituted NRPS System.在体外重建的 NRPS 系统上全合成吡咯并[4,2]苯并二氮杂卓骨架托马霉素。
Cell Chem Biol. 2017 Oct 19;24(10):1216-1227.e8. doi: 10.1016/j.chembiol.2017.08.001. Epub 2017 Sep 7.
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Structural and functional aspects of the nonribosomal peptide synthetase condensation domain superfamily: discovery, dissection and diversity.非核糖体肽合成酶缩合结构域超家族的结构和功能方面:发现、剖析和多样性。
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Nonribosomal Peptide Synthesis-Principles and Prospects.非核糖体肽合成——原理与展望。
Angew Chem Int Ed Engl. 2017 Mar 27;56(14):3770-3821. doi: 10.1002/anie.201609079. Epub 2017 Mar 21.
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FLAMEnGO 2.0: an enhanced fuzzy logic algorithm for structure-based assignment of methyl group resonances.FLAMEnGO 2.0:一种用于基于结构的甲基共振归属的增强型模糊逻辑算法。
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