Literature DB >> 12837113

Beyond the decoupling approximation in the model free approach for the interpretation of NMR relaxation of macromolecules in solution.

Liliya Vugmeyster1, Daniel P Raleigh, Arthur G Palmer, Boris E Vugmeister.   

Abstract

The model free (MF) approach allows straightforward extraction of generalized order parameters and correlation times for internal and overall bond vector reorientational fluctuations from NMR spin relaxation measurements for macromolecules in solution. The drawback of this approach is the use of a decoupling approximation that neglects correlations between internal and overall molecular motions. These correlations are significant when fluctuation amplitudes are less than the size of the "cage" that restricts the bond vector. In this regime, motion of the bond vector is only indirectly affected by molecule fluctuations through the orienting potential for the local director axis. By separating the regimes of large and small amplitude molecular fluctuations, an expression for the spectral density function is derived that does not invoke the decoupling approximation, but that relies on the same macroscopic level of description as the original MF approach. The parameters of the spectral density function provide insight into the effects on the MF parameters that result from violation of the decoupling approximation.

Mesh:

Substances:

Year:  2003        PMID: 12837113     DOI: 10.1021/ja029480f

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


  16 in total

Review 1.  Structure determination of membrane proteins by NMR spectroscopy.

Authors:  Stanley J Opella; Francesca M Marassi
Journal:  Chem Rev       Date:  2004-08       Impact factor: 60.622

2.  Comparison of fast backbone dynamics at amide nitrogen and carbonyl sites in dematin headpiece C-terminal domain and its S74E mutant.

Authors:  Liliya Vugmeyster; Dmitry Ostrovsky; Ying Li
Journal:  J Biomol NMR       Date:  2010-04-16       Impact factor: 2.835

Review 3.  Structural dynamics of bio-macromolecules by NMR: the slowly relaxing local structure approach.

Authors:  Eva Meirovitch; Yury E Shapiro; Antonino Polimeno; Jack H Freed
Journal:  Prog Nucl Magn Reson Spectrosc       Date:  2010-05       Impact factor: 9.795

4.  PhosphoThr peptide binding globally rigidifies much of the FHA domain from Arabidopsis receptor kinase-associated protein phosphatase.

Authors:  Zhaofeng Ding; Gui-in Lee; Xiangyang Liang; Fabio Gallazzi; A Arunima; Steven R Van Doren
Journal:  Biochemistry       Date:  2005-08-02       Impact factor: 3.162

Review 5.  Characterization of the fast dynamics of protein amino acid side chains using NMR relaxation in solution.

Authors:  Tatyana I Igumenova; Kendra King Frederick; A Joshua Wand
Journal:  Chem Rev       Date:  2006-05       Impact factor: 60.622

6.  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

7.  iRED analysis of TAR RNA reveals motional coupling, long-range correlations, and a dynamical hinge.

Authors:  Catherine Musselman; Hashim M Al-Hashimi; Ioan Andricioaei
Journal:  Biophys J       Date:  2007-04-20       Impact factor: 4.033

8.  A theory of protein dynamics to predict NMR relaxation.

Authors:  Esther Caballero-Manrique; Jenelle K Bray; William A Deutschman; Frederick W Dahlquist; Marina G Guenza
Journal:  Biophys J       Date:  2007-08-31       Impact factor: 4.033

9.  Monitoring aromatic picosecond to nanosecond dynamics in proteins via 13C relaxation: expanding perturbation mapping of the rigidifying core mutation, V54A, in eglin c.

Authors:  Joshua A Boyer; Andrew L Lee
Journal:  Biochemistry       Date:  2008-04-05       Impact factor: 3.162

10.  Intrinsic domain and loop dynamics commensurate with catalytic turnover in an induced-fit enzyme.

Authors:  Omar Davulcu; Peter F Flynn; Michael S Chapman; Jack J Skalicky
Journal:  Structure       Date:  2009-10-14       Impact factor: 5.006

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.