Proteins as fractals: Role of the hydrodynamic interaction

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Abstract

Exploiting the fractal nature of folded proteins, we study the effect of the hydrodynamic interaction between amino acids using a Zimm-type model. We compute the time-dependent mean square displacement of an amino acid and the time-dependent autocorrelation function of the distance between two amino acids, and we show that these dynamic quantities evolve anomalously, similar to the Rouse-type behavior, yet with modified dynamic exponents. Good agreement is found with recent neutron spin-echo studies of myoglobin and hemoglobin.

Original languageEnglish
Article number020902
JournalPhysical Review E
Volume83
Issue number2
DOIs
StatePublished - 16 Feb 2011

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