Literature DB >> 20063887

Defining conformational ensembles of intrinsically disordered and partially folded proteins directly from chemical shifts.

Malene Ringkjøbing Jensen1, Loïc Salmon, Gabrielle Nodet, Martin Blackledge.   

Abstract

The development of meaningful descriptions of the conformational behavior of intrinsically disordered proteins represents a key challenge for contemporary structural biology. An approach is developed, based on the combination of ensemble descriptions of unfolded proteins and state-of-the-art chemical shift prediction algorithms, to describe backbone dihedral angle conformational behavior on the basis of (13)C and (15)N NMR chemical shifts alone. This allows the identification and characterization of entire secondary structural elements and their associated populations, as well as providing indications of the subtle detail of local conformational sampling in unfolded proteins.

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Year:  2010        PMID: 20063887     DOI: 10.1021/ja909973n

Source DB:  PubMed          Journal:  J Am Chem Soc        ISSN: 0002-7863            Impact factor:   15.419


  53 in total

1.  Temperature-dependent structural changes in intrinsically disordered proteins: formation of alpha-helices or loss of polyproline II?

Authors:  Magnus Kjaergaard; Ann-Beth Nørholm; Ruth Hendus-Altenburger; Stine F Pedersen; Flemming M Poulsen; Birthe B Kragelund
Journal:  Protein Sci       Date:  2010-08       Impact factor: 6.725

2.  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

3.  Nuclear magnetic resonance signal chemical shifts and molecular simulations: a multidisciplinary approach to modeling copper protein structures.

Authors:  Jacopo Sgrignani; Roberta Pierattelli
Journal:  J Biol Inorg Chem       Date:  2011-08-13       Impact factor: 3.358

4.  Structure-based prediction of methyl chemical shifts in proteins.

Authors:  Aleksandr B Sahakyan; Wim F Vranken; Andrea Cavalli; Michele Vendruscolo
Journal:  J Biomol NMR       Date:  2011-07-12       Impact factor: 2.835

5.  Intrinsic disorder in measles virus nucleocapsids.

Authors:  Malene Ringkjøbing Jensen; Guillaume Communie; Euripedes Almeida Ribeiro; Nicolas Martinez; Ambroise Desfosses; Loïc Salmon; Luca Mollica; Frank Gabel; Marc Jamin; Sonia Longhi; Rob W H Ruigrok; Martin Blackledge
Journal:  Proc Natl Acad Sci U S A       Date:  2011-05-25       Impact factor: 11.205

6.  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

7.  Comparative studies of disordered proteins with similar sequences: application to Aβ40 and Aβ42.

Authors:  Charles K Fisher; Orly Ullman; Collin M Stultz
Journal:  Biophys J       Date:  2013-04-02       Impact factor: 4.033

8.  Conformational Dynamics of the Partially Disordered Yeast Transcription Factor GCN4.

Authors:  Paul Robustelli; Nikola Trbovic; Richard A Friesner; Arthur G Palmer
Journal:  J Chem Theory Comput       Date:  2013-11-01       Impact factor: 6.006

Review 9.  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

Review 10.  Advances in the determination of nucleic acid conformational ensembles.

Authors:  Loïc Salmon; Shan Yang; Hashim M Al-Hashimi
Journal:  Annu Rev Phys Chem       Date:  2013-12-16       Impact factor: 12.703

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