7 research outputs found
Directed transport as a mechanism for protein folding in vivo
We propose a model for protein folding in vivo based on a Brownian-ratchet
mechanism in the multidimensional energy landscape space. The device is able to
produce directed transport taking advantage of the assumed intrinsic asymmetric
properties of the proteins and employing the consumption of energy provided by
an external source. Through such a directed transport phenomenon, the
polypeptide finds the native state starting from any initial state in the
energy landscape with great efficacy and robustness, even in the presence of
different type of obstacles. This model solves Levinthal's paradox without
requiring biased transition probabilities but at the expense of opening the
system to an external field.Comment: 16 pages, 7 figure
A discretized integral hydrodynamics
Using an interpolant form for the gradient of a function of position, we
write an integral version of the conservation equations for a fluid. In the
appropriate limit, these become the usual conservation laws of mass, momentum
and energy. We also discuss the special cases of the Navier-Stokes equations
for viscous flow and the Fourier law for thermal conduction in the presence of
hydrodynamic fluctuations. By means of a discretization procedure, we show how
these equations can give rise to the so-called "particle dynamics" of Smoothed
Particle Hydrodynamics and Dissipative Particle Dynamics.Comment: 10 pages, RevTex, submitted to Phys. Rev.