Literature DB >> 22988847

Structural characterization of intrinsically disordered proteins by the combined use of NMR and SAXS.

Nathalie Sibille1, Pau Bernadó.   

Abstract

In recent years, IDPs (intrinsically disordered proteins) have emerged as pivotal actors in biology. Despite IDPs being present in all kingdoms of life, they are more abundant in eukaryotes where they are involved in the vast majority of regulation and signalling processes. The realization that, in some cases, functional states of proteins were partly or fully disordered was in contradiction to the traditional view where a well defined three-dimensional structure was required for activity. Several experimental evidences indicate, however, that structural features in IDPs such as transient secondary-structural elements and overall dimensions are crucial to their function. NMR has been the main tool to study IDP structure by probing conformational preferences at residue level. Additionally, SAXS (small-angle X-ray scattering) has the capacity to report on the three-dimensional space sampled by disordered states and therefore complements the local information provided by NMR. The present review describes how the synergy between NMR and SAXS can be exploited to obtain more detailed structural and dynamic models of IDPs in solution. These combined strategies, embedded into computational approaches, promise the elucidation of the structure-function properties of this important, but elusive, family of biomolecules.

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Year:  2012        PMID: 22988847     DOI: 10.1042/BST20120149

Source DB:  PubMed          Journal:  Biochem Soc Trans        ISSN: 0300-5127            Impact factor:   5.407


  24 in total

1.  HN-NCA heteronuclear TOCSY-NH experiment for (1)H(N) and (15)N sequential correlations in ((13)C, (15)N) labelled intrinsically disordered proteins.

Authors:  Christoph Wiedemann; Nishit Goradia; Sabine Häfner; Christian Herbst; Matthias Görlach; Oliver Ohlenschläger; Ramadurai Ramachandran
Journal:  J Biomol NMR       Date:  2015-08-18       Impact factor: 2.835

Review 2.  Idiosyncrasies of hnRNP A1-RNA recognition: Can binding mode influence function.

Authors:  Jeffrey D Levengood; Blanton S Tolbert
Journal:  Semin Cell Dev Biol       Date:  2018-04-09       Impact factor: 7.727

Review 3.  Emerging applications of small angle solution scattering in structural biology.

Authors:  Barnali N Chaudhuri
Journal:  Protein Sci       Date:  2015-02-12       Impact factor: 6.725

Review 4.  Structural metamorphism and polymorphism in proteins on the brink of thermodynamic stability.

Authors:  Prakash Kulkarni; Tsega L Solomon; Yanan He; Yihong Chen; Philip N Bryan; John Orban
Journal:  Protein Sci       Date:  2018-09-24       Impact factor: 6.725

5.  High-resolution structural characterization of Noxa, an intrinsically disordered protein, by microsecond molecular dynamics simulations.

Authors:  L Michel Espinoza-Fonseca; Ameeta Kelekar
Journal:  Mol Biosyst       Date:  2015-07

6.  Triple resonance ¹⁵Ν NMR relaxation experiments for studies of intrinsically disordered proteins.

Authors:  Pavel Srb; Jiří Nováček; Pavel Kadeřávek; Alžbeta Rabatinová; Libor Krásný; Jitka Žídková; Janette Bobálová; Vladimír Sklenář; Lukáš Žídek
Journal:  J Biomol NMR       Date:  2017-10-25       Impact factor: 2.835

7.  Unveiling Inherent Degeneracies in Determining Population-Weighted Ensembles of Interdomain Orientational Distributions Using NMR Residual Dipolar Couplings: Application to RNA Helix Junction Helix Motifs.

Authors:  Shan Yang; Hashim M Al-Hashimi
Journal:  J Phys Chem B       Date:  2015-07-17       Impact factor: 2.991

8.  NMR structure analysis of uniformly 13C-labeled carbohydrates.

Authors:  Carolina Fontana; Helena Kovacs; Göran Widmalm
Journal:  J Biomol NMR       Date:  2014-04-26       Impact factor: 2.835

9.  p15PAF is an intrinsically disordered protein with nonrandom structural preferences at sites of interaction with other proteins.

Authors:  Alfredo De Biasio; Alain Ibáñez de Opakua; Tiago N Cordeiro; Maider Villate; Nekane Merino; Nathalie Sibille; Moreno Lelli; Tammo Diercks; Pau Bernadó; Francisco J Blanco
Journal:  Biophys J       Date:  2014-02-18       Impact factor: 4.033

Review 10.  Developing advanced X-ray scattering methods combined with crystallography and computation.

Authors:  J Jefferson P Perry; John A Tainer
Journal:  Methods       Date:  2013-01-29       Impact factor: 3.608

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