Literature DB >> 15630563

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

Denis S Korchuganov1, Ivan E Gagnidze, Elena N Tkach, Alexey A Schulga, Mikhail P Kirpichnikov, Alexander S Arseniev.   

Abstract

An accurate determination of the overall rotation of a protein plays a crucial role in the investigation of its internal motions by NMR. In the present work, an innovative approach to the determination of the protein rotational correlation time tau(R) from the heteronuclear relaxation data is proposed. The approach is based on a joint fit of relaxation data acquired at several viscosities of a protein solution. The method has been tested on computer simulated relaxation data as compared to the traditional tau(R) determination method from T(1)/T(2) ratio. The approach has been applied to ribonuclease barnase from Bacillus amyloliquefaciens dissolved in an aqueous solution and deuterated glycerol as a viscous component. The resulting rotational correlation time of 5.56 +/- 0.01 ns and other rotational diffusion tensor parameters are in good agreement with those determined from T(1)/T(2) ratio.

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Year:  2004        PMID: 15630563     DOI: 10.1007/s10858-004-4242-7

Source DB:  PubMed          Journal:  J Biomol NMR        ISSN: 0925-2738            Impact factor:   2.835


  10 in total

1.  Efficient analysis of macromolecular rotational diffusion from heteronuclear relaxation data.

Authors:  P Dosset; J C Hus; M Blackledge; D Marion
Journal:  J Biomol NMR       Date:  2000-01       Impact factor: 2.835

2.  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

3.  MOLMOL: a program for display and analysis of macromolecular structures.

Authors:  R Koradi; M Billeter; K Wüthrich
Journal:  J Mol Graph       Date:  1996-02

4.  Model-free approach beyond the borders of its applicability.

Authors:  D M Korzhnev; V Y Orekhov; A S Arseniev
Journal:  J Magn Reson       Date:  1997-08       Impact factor: 2.229

Review 5.  Hydrodynamic properties of complex, rigid, biological macromolecules: theory and applications.

Authors:  J G Garcia de la Torre; V A Bloomfield
Journal:  Q Rev Biophys       Date:  1981-02       Impact factor: 5.318

6.  Sampling of protein dynamics in nanosecond time scale by 15N NMR relaxation and self-diffusion measurements.

Authors:  V Y Orekhov; D M Korzhnev; K V Pervushin; E Hoffmann; A S Arseniev
Journal:  J Biomol Struct Dyn       Date:  1999-08

7.  Pressure effect on the dynamics of an isolated alpha-helix studied by 15N-1H NMR relaxation.

Authors:  V Y Orekhov; P V Dubovskii; H Yamada; K Akasaka; A S Arseniev
Journal:  J Biomol NMR       Date:  2000-07       Impact factor: 2.835

8.  15N relaxation study of the cold shock protein CspB at various solvent viscosities.

Authors:  Markus Zeeb; Maik H Jacob; Thomas Schindler; Jochen Balbach
Journal:  J Biomol NMR       Date:  2003-11       Impact factor: 2.835

9.  Backbone dynamics of a free and phosphopeptide-complexed Src homology 2 domain studied by 15N NMR relaxation.

Authors:  N A Farrow; R Muhandiram; A U Singer; S M Pascal; C M Kay; G Gish; S E Shoelson; T Pawson; J D Forman-Kay; L E Kay
Journal:  Biochemistry       Date:  1994-05-17       Impact factor: 3.162

10.  Backbone dynamics of Escherichia coli ribonuclease HI: correlations with structure and function in an active enzyme.

Authors:  A M Mandel; M Akke; A G Palmer
Journal:  J Mol Biol       Date:  1995-02-10       Impact factor: 5.469

  10 in total
  10 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 dynamics from NMR: the slowly relaxing local structure analysis compared with model-free analysis.

Authors:  Eva Meirovitch; Yury E Shapiro; Antonino Polimeno; Jack H Freed
Journal:  J Phys Chem A       Date:  2006-07-13       Impact factor: 2.781

3.  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

4.  Concomitant disorder and high-affinity zinc binding in the human zinc- and iron-regulated transport protein 4 intracellular loop.

Authors:  Elizabeth M Bafaro; Mark W Maciejewski; Jeffrey C Hoch; Robert E Dempski
Journal:  Protein Sci       Date:  2019-03-12       Impact factor: 6.725

5.  A probe to monitor performance of ¹⁵N longitudinal relaxation experiments for proteins in solution.

Authors:  Rieko Ishima
Journal:  J Biomol NMR       Date:  2014-01-05       Impact factor: 2.835

6.  Continuous Fluorescence Depletion Anisotropy Measurement of Protein Rotation.

Authors:  Dongmei Zhang; Jinming Song; Jason Pace; Deborah A Roess; B George Barisas
Journal:  J Fluoresc       Date:  2018-02-03       Impact factor: 2.217

7.  Protein-Inhibitor Interaction Studies Using NMR.

Authors:  Rieko Ishima
Journal:  Appl NMR Spectrosc       Date:  2015

8.  Detection of nanosecond time scale side-chain jumps in a protein dissolved in water/glycerol solvent.

Authors:  Jun Xu; Yi Xue; Nikolai R Skrynnikov
Journal:  J Biomol NMR       Date:  2009-07-07       Impact factor: 2.835

9.  Translational and rotational diffusion of a small globular protein under crowded conditions.

Authors:  Conggang Li; Yaqiang Wang; Gary J Pielak
Journal:  J Phys Chem B       Date:  2009-10-08       Impact factor: 2.991

Review 10.  NMR measurement of biomolecular translational and rotational motion for evaluating changes of protein oligomeric state in solution.

Authors:  Shenggen Yao; David W Keizer; Jeffrey J Babon; Frances Separovic
Journal:  Eur Biophys J       Date:  2022-04-05       Impact factor: 2.095

  10 in total

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