Folding of ubiquitin: a simple model describes the strange kinetics

The Journal of Physical Chemistry. B
Sergei F ChekmarevMartin Karplus

Abstract

The ubiquitin mutant UbG folding experiments of Sabelko et al., in which "strange kinetics" were observed, are interpreted in terms of a simple kinetic model. A minimal set of states consisting of a semicompact globule, two off-pathway traps, and the native state are included; the fully unfolded state is not considered because folding to the semicompact globule is fast. Both the low- and the high-temperature experiments of Sabelko et al. are fitted by a system of kinetic equations determining the transitions between these states. It is possible that cold- and heat-denaturated states of UbG are the basis of the off-pathway traps. The fits of the kinetic model to the experimental results provides an estimate of the rate constants for the various reaction channels and show how their contributions vary with temperature. Introduction of an on-pathway intermediate instead of one of the off-pathway traps does not lead to agreement with the experiments.

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Jul 26, 2006·The Journal of Physical Chemistry. B·Sergei F ChekmarevMartin Karplus

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Citations

May 8, 2009·Physical Chemistry Chemical Physics : PCCP·Melinda NoronhaHelena Santos
Jul 16, 2008·Proceedings of the National Academy of Sciences of the United States of America·Janne A IhalainenPeter Hamm
Sep 2, 2008·Proceedings of the National Academy of Sciences of the United States of America·Ying WuOsman Bilsel
Sep 23, 2008·Biophysical Journal·Sangwook WuGaregin A Papoian
Nov 8, 2016·Journal of Biomolecular Structure & Dynamics·Andrey Yu Palyanov, Sergei F Chekmarev
Mar 5, 2009·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·Sergei F Chekmarev
May 21, 2009·The Journal of Physical Chemistry. B·Pavel I ZhuravlevGaregin A Papoian
Feb 24, 2007·The Journal of Physical Chemistry. B·Andrey Yu PalyanovSergei F Chekmarev

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