Literature DB >> 21874206

Towards a robust description of intrinsic protein disorder using nuclear magnetic resonance spectroscopy.

Robert Schneider1, Jie-rong Huang, Mingxi Yao, Guillaume Communie, Valéry Ozenne, Luca Mollica, Loïc Salmon, Malene Ringkjøbing Jensen, Martin Blackledge.   

Abstract

In order to understand the conformational behaviour of Intrinsically Disordered Proteins (IDPs), it is essential to develop a molecular representation of the partially folded state. Due to the very large number of degrees of conformational freedom available to such a disordered system, this problem is highly underdetermined. Characterisation therefore requires extensive experimental data, and novel analytical tools are required to exploit the specific conformational sensitivity of different experimental parameters. In this review we concentrate on the use of nuclear magnetic resonance (NMR) spectroscopy for the study of conformational behaviour of IDPs at atomic resolution. Each experimental NMR parameter is sensitive to different aspects of the structural and dynamic behaviour of the disordered state and requires specific consideration of the relevant averaging properties of the physical interaction. In this review we present recent advances in the description of disordered proteins and the selection of representative ensembles on the basis of experimental data using statistical coil sampling from flexible-meccano and ensemble selection using ASTEROIDS. Using these tools we aim to develop a unified molecular representation of the disordered state, combining complementary data sets to extract a meaningful description of the conformational behaviour of the protein.

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Year:  2011        PMID: 21874206     DOI: 10.1039/c1mb05291h

Source DB:  PubMed          Journal:  Mol Biosyst        ISSN: 1742-2051


  29 in total

1.  Differences in β-strand populations of monomeric Aβ40 and Aβ42.

Authors:  K Aurelia Ball; Aaron H Phillips; David E Wemmer; Teresa Head-Gordon
Journal:  Biophys J       Date:  2013-06-18       Impact factor: 4.033

Review 2.  An introduction to biological NMR spectroscopy.

Authors:  Dominique Marion
Journal:  Mol Cell Proteomics       Date:  2013-07-06       Impact factor: 5.911

3.  From sequence and forces to structure, function, and evolution of intrinsically disordered proteins.

Authors:  Julie D Forman-Kay; Tanja Mittag
Journal:  Structure       Date:  2013-09-03       Impact factor: 5.006

4.  Identification of fibril-like tertiary contacts in soluble monomeric α-synuclein.

Authors:  Santiago Esteban-Martín; Jordi Silvestre-Ryan; Carlos W Bertoncini; Xavier Salvatella
Journal:  Biophys J       Date:  2013-09-03       Impact factor: 4.033

5.  Using chemical shifts to generate structural ensembles for intrinsically disordered proteins with converged distributions of secondary structure.

Authors:  F Marty Ytreberg; Wade Borcherds; Hongwei Wu; Gary W Daughdrill
Journal:  Intrinsically Disord Proteins       Date:  2015-02-03

6.  Investigation of the Polymeric Properties of α-Synuclein and Comparison with NMR Experiments: A Replica Exchange Molecular Dynamics Study.

Authors:  Chitra Narayanan; Daniel S Weinstock; Kuen-Phon Wu; Jean Baum; Ronald M Levy
Journal:  J Chem Theory Comput       Date:  2012-06-05       Impact factor: 6.006

Review 7.  Physicochemical properties of cells and their effects on intrinsically disordered proteins (IDPs).

Authors:  Francois-Xavier Theillet; Andres Binolfi; Tamara Frembgen-Kesner; Karan Hingorani; Mohona Sarkar; Ciara Kyne; Conggang Li; Peter B Crowley; Lila Gierasch; Gary J Pielak; Adrian H Elcock; Anne Gershenson; Philipp Selenko
Journal:  Chem Rev       Date:  2014-06-05       Impact factor: 60.622

8.  AWSEM-IDP: A Coarse-Grained Force Field for Intrinsically Disordered Proteins.

Authors:  Hao Wu; Peter G Wolynes; Garegin A Papoian
Journal:  J Phys Chem B       Date:  2018-08-09       Impact factor: 2.991

Review 9.  Integrative, dynamic structural biology at atomic resolution--it's about time.

Authors:  Henry van den Bedem; James S Fraser
Journal:  Nat Methods       Date:  2015-04       Impact factor: 28.547

Review 10.  Describing sequence-ensemble relationships for intrinsically disordered proteins.

Authors:  Albert H Mao; Nicholas Lyle; Rohit V Pappu
Journal:  Biochem J       Date:  2013-01-15       Impact factor: 3.857

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