Literature DB >> 26624789

Using Pseudocontact Shifts and Residual Dipolar Couplings as Exact NMR Restraints for the Determination of Protein Structural Ensembles.

Carlo Camilloni1, Michele Vendruscolo1.   

Abstract

Nuclear magnetic resonance (NMR) spectroscopy provides detailed information about the structure and dynamics of proteins by exploiting the conformational dependence of the magnetic properties of certain atomic nuclei. The mapping between NMR measurements and molecular structures, however, often requires approximated descriptions based on the fitting of a number of parameters, thus reducing the quality of the information available from the experiments. To improve on this limitation, we show here that it is possible to use pseudocontact shifts and residual dipolar couplings as "exact" NMR restraints. We implement this strategy by using a replica-averaging method and illustrate its application by calculating an ensemble of structures representing the dynamics of the two-domain protein calmodulin.

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Year:  2015        PMID: 26624789     DOI: 10.1021/acs.biochem.5b01138

Source DB:  PubMed          Journal:  Biochemistry        ISSN: 0006-2960            Impact factor:   3.162


  4 in total

1.  A protocol for the refinement of NMR structures using simultaneously pseudocontact shift restraints from multiple lanthanide ions.

Authors:  Davide Sala; Andrea Giachetti; Claudio Luchinat; Antonio Rosato
Journal:  J Biomol NMR       Date:  2016-10-22       Impact factor: 2.835

2.  Identification of productive and futile encounters in an electron transfer protein complex.

Authors:  Witold Andrałojć; Yoshitaka Hiruma; Wei-Min Liu; Enrico Ravera; Masaki Nojiri; Giacomo Parigi; Claudio Luchinat; Marcellus Ubbink
Journal:  Proc Natl Acad Sci U S A       Date:  2017-02-21       Impact factor: 11.205

Review 3.  Microscopic Characterization of Membrane Transporter Function by In Silico Modeling and Simulation.

Authors:  J V Vermaas; N Trebesch; C G Mayne; S Thangapandian; M Shekhar; P Mahinthichaichan; J L Baylon; T Jiang; Y Wang; M P Muller; E Shinn; Z Zhao; P-C Wen; E Tajkhorshid
Journal:  Methods Enzymol       Date:  2016-07-11       Impact factor: 1.600

4.  Rapid and accurate determination of atomistic RNA dynamic ensemble models using NMR and structure prediction.

Authors:  Honglue Shi; Atul Rangadurai; Hala Abou Assi; Rohit Roy; David A Case; Daniel Herschlag; Joseph D Yesselman; Hashim M Al-Hashimi
Journal:  Nat Commun       Date:  2020-11-02       Impact factor: 14.919

  4 in total

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