Literature DB >> 10500133

Hierarchies and logarithmic oscillations in the temporal relaxation patterns of proteins and other complex systems.

R Metzler1, J Klafter, J Jortner.   

Abstract

Logarithmic oscillations superimposed on the temporal relaxation patterns of complex systems are considered from the standpoint of their hierarchical origin. We propose that a closer examination of experimental data should reveal logarithmic oscillations in systems that are characterized by a hierarchical structure of their dynamical degrees of freedom. On that footing, a new methodology of data analysis is proposed that may prove important for the dynamics of protein folding and of conformational fluctuations in proteins in which the relevant time scales of the dynamical evolution underlying the relaxation kinetics can be deduced from these oscillations.

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Year:  1999        PMID： 10500133      PMCID： PMC17990          DOI： 10.1073/pnas.96.20.11085

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN： 0027-8424            Impact factor:   11.205


  21 in total

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Journal:  Phys Rev Lett       Date:  1985-10-07       Impact factor: 9.161

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Journal:  Science       Date:  1991-12-13       Impact factor: 47.728

5.  Linking topography of its potential surface with the dynamics of folding of a protein model.

Authors:  R S Berry; N Elmaci; J P Rose; B Vekhter
Journal:  Proc Natl Acad Sci U S A       Date:  1997-09-02       Impact factor: 11.205

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Journal:  Proc Natl Acad Sci U S A       Date:  1985-08       Impact factor: 11.205

7.  Simple model of protein folding kinetics.

Authors:  R Zwanzig
Journal:  Proc Natl Acad Sci U S A       Date:  1995-10-10       Impact factor: 11.205

8.  Toward an outline of the topography of a realistic protein-folding funnel.

Authors:  J N Onuchic; P G Wolynes; Z Luthey-Schulten; N D Socci
Journal:  Proc Natl Acad Sci U S A       Date:  1995-04-11       Impact factor: 11.205

9.  How does a protein fold?

Authors:  A Sali; E Shakhnovich; M Karplus
Journal:  Nature       Date:  1994-05-19       Impact factor: 49.962

10.  Spin glasses and the statistical mechanics of protein folding.

Authors:  J D Bryngelson; P G Wolynes
Journal:  Proc Natl Acad Sci U S A       Date:  1987-11       Impact factor: 11.205
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  12 in total

1.  Picosecond conformational transition and equilibration of a cyclic peptide.

Authors:  Jens Bredenbeck; Jan Helbing; Arne Sieg; Tobias Schrader; Wolfgang Zinth; Christian Renner; Raymond Behrendt; Luis Moroder; Josef Wachtveitl; Peter Hamm
Journal:  Proc Natl Acad Sci U S A       Date:  2003-05-07       Impact factor: 11.205

2.  Folding lambda-repressor at its speed limit.

Authors:  Wei Yuan Yang; Martin Gruebele
Journal:  Biophys J       Date:  2004-07       Impact factor: 4.033

3.  Stretched exponential decay and correlations in the catalytic activity of fluctuating single lipase molecules.

Authors:  Ophir Flomenbom; Kelly Velonia; Davey Loos; Sadahiro Masuo; Mircea Cotlet; Yves Engelborghs; Johan Hofkens; Alan E Rowan; Roeland J M Nolte; Mark Van der Auweraer; Frans C de Schryver; Joseph Klafter
Journal:  Proc Natl Acad Sci U S A       Date:  2005-02-04       Impact factor: 11.205

4.  Kinetics are probe-dependent during downhill folding of an engineered lambda6-85 protein.

Authors:  Hairong Ma; Martin Gruebele
Journal:  Proc Natl Acad Sci U S A       Date:  2005-02-07       Impact factor: 11.205

5.  Alpha-helix formation in a photoswitchable peptide tracked from picoseconds to microseconds by time-resolved IR spectroscopy.

Authors:  Jens Bredenbeck; Jan Helbing; Janet R Kumita; G Andrew Woolley; Peter Hamm
Journal:  Proc Natl Acad Sci U S A       Date:  2005-02-07       Impact factor: 11.205

6.  High resolution approach to the native state ensemble kinetics and thermodynamics.

Authors:  Sangwook Wu; Pavel I Zhuravlev; Garegin A Papoian
Journal:  Biophys J       Date:  2008-09-19       Impact factor: 4.033

7.  Nanosecond motions in proteins impose bounds on the timescale distributions of local dynamics.

Authors:  Osman Burak Okan; Ali Rana Atilgan; Canan Atilgan
Journal:  Biophys J       Date:  2009-10-07       Impact factor: 4.033

8.  Protein stability and folding kinetics in the nucleus and endoplasmic reticulum of eucaryotic cells.

Authors:  A Dhar; K Girdhar; D Singh; H Gelman; S Ebbinghaus; M Gruebele
Journal:  Biophys J       Date:  2011-07-20       Impact factor: 4.033

9.  Periodic and stochastic thermal modulation of protein folding kinetics.

Authors:  Max Platkov; Martin Gruebele
Journal:  J Chem Phys       Date:  2014-07-21       Impact factor: 3.488

10.  Proline can have opposite effects on fast and slow protein folding phases.

Authors:  Szabolcs Osváth; Martin Gruebele
Journal:  Biophys J       Date:  2003-08       Impact factor: 4.033
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