Literature DB >> 17562038

An overview of recent developments in the interpretation and prediction of fast internal protein dynamics.

Gabrielle Nodet1, Daniel Abergel.   

Abstract

During the past decades, NMR spectroscopy has emerged as a unique tool for the study of protein dynamics. Indeed, relaxation studies on isotopically labeled proteins can provide information on the overall motions as well as the internal fast, sub-nanosecond, dynamics. Therefore, the interpretation and the prediction of spin relaxation rates in proteins are important issues that have motivated numerous theoretical and methodological developments, including the description of overall dynamics and its possible coupling to internal mobility, the introduction of models of internal dynamics, the determination of correlation functions from experimental data, and the relationship between relaxation and thermodynamical quantities. A brief account of recent developments that have proven useful in this domain are presented.

Mesh:

Substances:

Year:  2007        PMID: 17562038     DOI: 10.1007/s00249-007-0167-x

Source DB:  PubMed          Journal:  Eur Biophys J        ISSN: 0175-7571            Impact factor:   1.733


  50 in total

1.  A structural mode-coupling approach to 15N NMR relaxation in proteins.

Authors:  V Tugarinov; Z Liang; Y E Shapiro; J H Freed; E Meirovitch
Journal:  J Am Chem Soc       Date:  2001-04-04       Impact factor: 15.419

2.  Contact model for the prediction of NMR N-H order parameters in globular proteins.

Authors:  Fengli Zhang; Rafael Brüschweiler
Journal:  J Am Chem Soc       Date:  2002-10-30       Impact factor: 15.419

3.  Interpretation of 15N NMR relaxation data of globular proteins using hydrodynamic calculations with HYDRONMR.

Authors:  Pau Bernadó; José García de la Torre; Miquel Pons
Journal:  J Biomol NMR       Date:  2002-06       Impact factor: 2.835

4.  Collective NMR relaxation model applied to protein dynamics.

Authors: 
Journal:  Phys Rev Lett       Date:  1994-02-07       Impact factor: 9.161

5.  Reorientational contact-weighted elastic network model for the prediction of protein dynamics: comparison with NMR relaxation.

Authors:  Dengming Ming; Rafael Brüschweiler
Journal:  Biophys J       Date:  2006-02-24       Impact factor: 4.033

6.  Direct measurement of angles between bond vectors in high-resolution NMR.

Authors:  B Reif; M Hennig; C Griesinger
Journal:  Science       Date:  1997-05-23       Impact factor: 47.728

7.  Deuterium spin probes of side-chain dynamics in proteins. 2. Spectral density mapping and identification of nanosecond time-scale side-chain motions.

Authors:  Nikolai R Skrynnikov; Oscar Millet; Lewis E Kay
Journal:  J Am Chem Soc       Date:  2002-06-05       Impact factor: 15.419

8.  Networks of coupled rotators: relationship between structures and internal dynamics in metal-binding proteins. Applications to apo- and holo-calbindin.

Authors:  Anne Dhulesia; Daniel Abergel; Geoffrey Bodenhausen
Journal:  J Am Chem Soc       Date:  2007-04-03       Impact factor: 15.419

9.  Structural determinants of protein dynamics: analysis of 15N NMR relaxation measurements for main-chain and side-chain nuclei of hen egg white lysozyme.

Authors:  M Buck; J Boyd; C Redfield; D A MacKenzie; D J Jeenes; D B Archer; C M Dobson
Journal:  Biochemistry       Date:  1995-03-28       Impact factor: 3.162

10.  Determination of the backbone mobility of ribonuclease T1 and its 2'GMP complex using molecular dynamics simulations and NMR relaxation data.

Authors:  D Fushman; O Ohlenschläger; H Rüterjans
Journal:  J Biomol Struct Dyn       Date:  1994-06
View more
  8 in total

Review 1.  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

2.  Protein conformational flexibility prediction using machine learning.

Authors:  Oleg Trott; Keri Siggers; Burkhard Rost; Arthur G Palmer
Journal:  J Magn Reson       Date:  2008-02-01       Impact factor: 2.229

Review 3.  Functional aspects of protein flexibility.

Authors:  Kaare Teilum; Johan G Olsen; Birthe B Kragelund
Journal:  Cell Mol Life Sci       Date:  2009-03-24       Impact factor: 9.261

Review 4.  An introduction to NMR-based approaches for measuring protein dynamics.

Authors:  Ian R Kleckner; Mark P Foster
Journal:  Biochim Biophys Acta       Date:  2010-11-06

5.  Backbone dynamics of deoxy and carbonmonoxy hemoglobin by NMR/SRLS.

Authors:  Eva Meirovitch; Mirco Zerbetto; Antonino Polimeno; Jack H Freed
Journal:  J Phys Chem B       Date:  2010-12-16       Impact factor: 2.991

6.  Methyl dynamics of a Ca2+-calmodulin-peptide complex from NMR/SRLS.

Authors:  Yury E Shapiro; Antonino Polimeno; Jack H Freed; Eva Meirovitch
Journal:  J Phys Chem B       Date:  2010-12-17       Impact factor: 2.991

7.  On the measurement of ¹⁵N-{¹H} nuclear Overhauser effects. 2. Effects of the saturation scheme and water signal suppression.

Authors:  Fabien Ferrage; Amy Reichel; Shibani Battacharya; David Cowburn; Ranajeet Ghose
Journal:  J Magn Reson       Date:  2010-09-24       Impact factor: 2.229

Review 8.  Nuclear spin relaxation in isotropic and anisotropic media.

Authors:  Matthew P Nicholas; Ertan Eryilmaz; Fabien Ferrage; David Cowburn; Ranajeet Ghose
Journal:  Prog Nucl Magn Reson Spectrosc       Date:  2010-04-29       Impact factor: 9.795

  8 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.