Literature DB >> 26387100

NMR Methods for the Study of Instrinsically Disordered Proteins Structure, Dynamics, and Interactions: General Overview and Practical Guidelines.

Bernhard Brutscher1, Isabella C Felli2, Sergio Gil-Caballero3, Tomáš Hošek4, Rainer Kümmerle3, Alessandro Piai4, Roberta Pierattelli5, Zsófia Sólyom6.   

Abstract

Thanks to recent improvements in NMR instrumentation, pulse sequence design, and sample preparation, a panoply of new NMR tools has become available for atomic resolution characterization of intrinsically disordered proteins (IDPs) that are optimized for the particular chemical and spectroscopic properties of these molecules. A wide range of NMR observables can now be measured on increasingly complex IDPs that report on their structural and dynamic properties in isolation, as part of a larger complex, or even inside an entire living cell. Herein we present basic NMR concepts, as well as optimised tools available for the study of IDPs in solution. In particular, the following sections are discussed hereafter: a short introduction to NMR spectroscopy and instrumentation (Sect. 3.1), the effect of order and disorder on NMR observables (Sect. 3.2), particular challenges and bottlenecks for NMR studies of IDPs (Sect. 3.3), 2D HN and CON NMR experiments: the fingerprint of an IDP (Sect. 3.4), tools for overcoming major bottlenecks of IDP NMR studies (Sect. 3.5), 13C detected experiments (Sect. 3.6), from 2D to 3D: from simple snapshots to site-resolved characterization of IDPs (Sect. 3.7), sequential NMR assignment: 3D experiments (Sect. 3.8), high-dimensional NMR experiments (nD, with n>3) (Sect. 3.9) and conclusions and perspectives (Sect. 3.10).

Entities:  

Keywords:  13C detection; BEST; NMR basics; NMR instrumentation; Sequential assignment; high dimensional NMR; pulse sequences

Mesh:

Substances:

Year:  2015        PMID: 26387100     DOI: 10.1007/978-3-319-20164-1_3

Source DB:  PubMed          Journal:  Adv Exp Med Biol        ISSN: 0065-2598            Impact factor:   2.622


  29 in total

1.  Taking Simultaneous Snapshots of Intrinsically Disordered Proteins in Action.

Authors:  Marco Schiavina; Maria Grazia Murrali; Letizia Pontoriero; Valerio Sainati; Rainer Kümmerle; Wolfgang Bermel; Roberta Pierattelli; Isabella C Felli
Journal:  Biophys J       Date:  2019-05-23       Impact factor: 4.033

2.  13C APSY-NMR for sequential assignment of intrinsically disordered proteins.

Authors:  Maria Grazia Murrali; Marco Schiavina; Valerio Sainati; Wolfgang Bermel; Roberta Pierattelli; Isabella C Felli
Journal:  J Biomol NMR       Date:  2018-02-28       Impact factor: 2.835

3.  POTENCI: prediction of temperature, neighbor and pH-corrected chemical shifts for intrinsically disordered proteins.

Authors:  Jakob Toudahl Nielsen; Frans A A Mulder
Journal:  J Biomol NMR       Date:  2018-02-05       Impact factor: 2.835

Review 4.  Bacterial functional amyloids: Order from disorder.

Authors:  Neha Jain; Matthew R Chapman
Journal:  Biochim Biophys Acta Proteins Proteom       Date:  2019-06-10       Impact factor: 3.036

5.  nightshift: A Python program for plotting simulated NMR spectra from assigned chemical shifts from the Biological Magnetic Resonance Data Bank.

Authors:  Ian J Fucci; R Andrew Byrd
Journal:  Protein Sci       Date:  2021-09-22       Impact factor: 6.993

6.  Simultaneous detection of intra- and inter-molecular paramagnetic relaxation enhancements in protein complexes.

Authors:  Cristina Olivieri; Manu Veliparambil Subrahmanian; Youlin Xia; Jonggul Kim; Fernando Porcelli; Gianluigi Veglia
Journal:  J Biomol NMR       Date:  2018-02-02       Impact factor: 2.835

Review 7.  Recent advances in automated protein design and its future challenges.

Authors:  Dani Setiawan; Jeffrey Brender; Yang Zhang
Journal:  Expert Opin Drug Discov       Date:  2018-04-25       Impact factor: 6.098

Review 8.  13C Direct Detected NMR for Challenging Systems.

Authors:  Isabella C Felli; Roberta Pierattelli
Journal:  Chem Rev       Date:  2022-01-13       Impact factor: 72.087

9.  Amino acid recognition for automatic resonance assignment of intrinsically disordered proteins.

Authors:  Alessandro Piai; Leonardo Gonnelli; Isabella C Felli; Roberta Pierattelli; Krzysztof Kazimierczuk; Katarzyna Grudziąż; Wiktor Koźmiński; Anna Zawadzka-Kazimierczuk
Journal:  J Biomol NMR       Date:  2016-02-18       Impact factor: 2.835

Review 10.  Protein stability: a crystallographer's perspective.

Authors:  Marc C Deller; Leopold Kong; Bernhard Rupp
Journal:  Acta Crystallogr F Struct Biol Commun       Date:  2016-01-26       Impact factor: 1.056

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