Literature DB >> 9281482

Model-free approach beyond the borders of its applicability.

D M Korzhnev1, V Y Orekhov, A S Arseniev.   

Abstract

Model calculations presented in this article show that commonly used methodology of 15N relaxation data analysis completely fails in detecting nanosecond time scale motions if the major part of the molecule is involved in these motions. New criteria are introduced for the detection of such cases, based on the dependence of the apparent overall correlation time, derived from the T1/T2 ratio, on the spectrometer frequency. Correctly estimating the overall rotation correlation time tauR was shown to play the key role in model-free data analysis. It is found, however, that in cases of slow internal motions with characteristic times of more than 3-4 ns, the effective tauR provided by the T1/T2 ratio for individual amide nitrogens can be used for the characterization of the fast picosecond internal dynamics.

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Year:  1997        PMID: 9281482     DOI: 10.1006/jmre.1997.1190

Source DB:  PubMed          Journal:  J Magn Reson        ISSN: 1090-7807            Impact factor:   2.229


  24 in total

1.  Assessing potential bias in the determination of rotational correlation times of proteins by NMR relaxation.

Authors:  A L Lee; A J Wand
Journal:  J Biomol NMR       Date:  1999-02       Impact factor: 2.835

2.  Off-resonance effects in 15N T2 CPMG measurements.

Authors:  D M Korzhnev; E V Tischenko; A S Arseniev
Journal:  J Biomol NMR       Date:  2000-07       Impact factor: 2.835

3.  Detection of nano-second internal motion and determination of overall tumbling times independent of the time scale of internal motion in proteins from NMR relaxation data.

Authors:  Göran Larsson; Gary Martinez; Jürgen Schleucher; Sybren S Wijmenga
Journal:  J Biomol NMR       Date:  2003-12       Impact factor: 2.835

4.  The use of model selection in the model-free analysis of protein dynamics.

Authors:  Edward J d'Auvergne; Paul R Gooley
Journal:  J Biomol NMR       Date:  2003-01       Impact factor: 2.835

5.  Determination of protein rotational correlation time from NMR relaxation data at various solvent viscosities.

Authors:  Denis S Korchuganov; Ivan E Gagnidze; Elena N Tkach; Alexey A Schulga; Mikhail P Kirpichnikov; Alexander S Arseniev
Journal:  J Biomol NMR       Date:  2004-12       Impact factor: 2.835

6.  Variability of the 15N chemical shielding tensors in the B3 domain of protein G from 15N relaxation measurements at several fields. Implications for backbone order parameters.

Authors:  Jennifer B Hall; David Fushman
Journal:  J Am Chem Soc       Date:  2006-06-21       Impact factor: 15.419

7.  Backbone dynamics in an intramolecular prolylpeptide-SH3 complex from the diphtheria toxin repressor, DtxR.

Authors:  Nilakshee Bhattacharya; Myunggi Yi; Huan-Xiang Zhou; Timothy M Logan
Journal:  J Mol Biol       Date:  2007-10-31       Impact factor: 5.469

8.  Model-free analysis for large proteins at high magnetic field strengths.

Authors:  Shou-Lin Chang; Andrew P Hinck; Rieko Ishima
Journal:  J Biomol NMR       Date:  2007-06-26       Impact factor: 2.835

9.  Application of the random coil index to studying protein flexibility.

Authors:  Mark V Berjanskii; David S Wishart
Journal:  J Biomol NMR       Date:  2007-11-06       Impact factor: 2.835

10.  Internal dynamics of the homotrimeric HIV-1 viral coat protein gp41 on multiple time scales.

Authors:  Nils-Alexander Lakomek; Joshua D Kaufman; Stephen J Stahl; John M Louis; Alexander Grishaev; Paul T Wingfield; Ad Bax
Journal:  Angew Chem Int Ed Engl       Date:  2013-02-28       Impact factor: 15.336

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