Literature DB >> 23794453

Conformational propensities of intrinsically disordered proteins from NMR chemical shifts.

Jaka Kragelj1, Valéry Ozenne, Martin Blackledge, Malene Ringkjøbing Jensen.   

Abstract

The realization that a protein can be fully functional even in the absence of a stable three-dimensional structure has motivated a large number of studies describing the conformational behaviour of these proteins at atomic resolution. Here, we review recent advances in the determination of local structural propensities of intrinsically disordered proteins (IDPs) from experimental NMR chemical shifts. A mapping of the local structure in IDPs is of paramount importance in order to understand the molecular details of complex formation, in particular, for IDPs that fold upon binding or undergo structural transitions to pathological forms of the same protein. We discuss experimental strategies for the spectral assignment of IDPs, chemical shift prediction algorithms and the generation of representative structural ensembles of IDPs on the basis of chemical shifts. Additionally, we highlight the inherent degeneracies associated with the determination of IDP sub-state populations from NMR chemical shifts alone.
Copyright © 2013 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Entities:  

Keywords:  NMR; chemical shifts; conformational propensities; ensemble description; intrinsically disordered proteins

Mesh:

Substances:

Year:  2013        PMID: 23794453     DOI: 10.1002/cphc.201300387

Source DB:  PubMed          Journal:  Chemphyschem        ISSN: 1439-4235            Impact factor:   3.102


  28 in total

1.  Insights into Unfolded Proteins from the Intrinsic ϕ/ψ Propensities of the AAXAA Host-Guest Series.

Authors:  Clare-Louise Towse; Jiri Vymetal; Jiri Vondrasek; Valerie Daggett
Journal:  Biophys J       Date:  2016-01-19       Impact factor: 4.033

2.  A reduced dimensionality NMR pulse sequence and an efficient protocol for unambiguous assignment in intrinsically disordered proteins.

Authors:  Jithender G Reddy; Ramakrishna V Hosur
Journal:  J Biomol NMR       Date:  2014-05-23       Impact factor: 2.835

Review 3.  Features of molecular recognition of intrinsically disordered proteins via coupled folding and binding.

Authors:  Jing Yang; Meng Gao; Junwen Xiong; Zhengding Su; Yongqi Huang
Journal:  Protein Sci       Date:  2019-09-04       Impact factor: 6.725

4.  Dihedral angle preferences of amino acid residues forming various non-local interactions in proteins.

Authors:  Konda Mani Saravanan; Samuel Selvaraj
Journal:  J Biol Phys       Date:  2017-06-02       Impact factor: 1.365

5.  Concerted millisecond timescale dynamics in the intrinsically disordered carboxyl terminus of γ-tubulin induced by mutation of a conserved tyrosine residue.

Authors:  Jason Harris; Maria Shadrina; Carlos Oliver; Jackie Vogel; Anthony Mittermaier
Journal:  Protein Sci       Date:  2017-12-15       Impact factor: 6.725

6.  Prediction of nearest neighbor effects on backbone torsion angles and NMR scalar coupling constants in disordered proteins.

Authors:  Yang Shen; Julien Roche; Alexander Grishaev; Ad Bax
Journal:  Protein Sci       Date:  2017-10-25       Impact factor: 6.725

7.  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

8.  Identification of Atg3 as an intrinsically disordered polypeptide yields insights into the molecular dynamics of autophagy-related proteins in yeast.

Authors:  Hana Popelka; Vladimir N Uversky; Daniel J Klionsky
Journal:  Autophagy       Date:  2014-06       Impact factor: 16.016

9.  Quantitative evaluation of positive ϕ angle propensity in flexible regions of proteins from three-bond J couplings.

Authors:  Jung Ho Lee; Jinfa Ying; Ad Bax
Journal:  Phys Chem Chem Phys       Date:  2016-02-17       Impact factor: 3.676

10.  Biophysical characterization of the structural change of Nopp140, an intrinsically disordered protein, in the interaction with CK2α.

Authors:  Jung-Hyun Na; Won-Kyu Lee; Yuyoung Kim; Cherlhyun Jeong; Seung Soo Song; Sun-Shin Cha; Kyou-Hoon Han; Yeon-Kyun Shin; Yeon Gyu Yu
Journal:  Biochem Biophys Res Commun       Date:  2016-06-11       Impact factor: 3.575

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