458 research outputs found
Layer Analysis of the Structure of Water Confined in Vycor Glass
A Molecular Dynamics simulation of the microscopic structure of water
confined in a silica pore is presented. A single cavity in the silica glass has
been modeled as to reproduce the main features of the pores of real Vycor
glass. A layer analysis of the site-site radial distribution functions evidence
the presence in the pore of two subsets of water molecules with different
microscopic structure. Molecules which reside in the inner layer, close to the
center of the pore, have the same structure as bulk water but at a temperature
of 30 K higher. On the contrary the structure of the water molecules in the
outer layer, close to the substrate, is strongly influenced by the
water-substrate hydrophilic interaction and sensible distortions of the H-bond
network and of the orientational correlations between neighboring molecules
show up. Lowering the hydration has little effect on the structure of water in
the outer layer. The consequences on experimental determinations of the
structural properties of water in confinement are discussed.Comment: 6 pages, 8 figures included in the text, one figure added, changes in
the tex
Influence of the Environment Fluctuations on Incoherent Neutron Scattering Functions
In extending the conventional dynamic models, we consider a simple model to
account for the environment fluctuations of particle atoms in a protein system
and derive the elastic incoherent structure factor (EISF) and the incoherent
scattering correlation function C(Q,t) for both the jump dynamics between sites
with fluctuating site interspacing and for the diffusion inside a fluctuating
sphere. We find that the EISF of the system (or the normalized elastic
intensity) is equal to that in the absence of fluctuations averaged over the
distribution of site interspacing or sphere radius a. The scattering
correlation function is ,
where the average is taken over the Q-dependent effective distribution of
relaxation rates \lambda_n(a) and \psi(t) is the correlation function of the
length a. When \psi(t)=1, the relaxation of C(Q,t) is exponential for the jump
dynamics between sites (since \lambda_n(a) is independent of a) while it is
nonexponential for diffusion inside a sphere.Comment: 7 pages, 7 eps figure
Dynamics of C-phycocyanin in various deuterated trehalose/water environments measured by quasielastic and elastic neutron scattering
The molecular understanding of protein stabilization by the disaccharide trehalose in extreme temperature or hydration conditions is still debated. In the present study, we investigated the role of trehalose on the dynamics of the protein C-phycocyanin (C-PC) by neutron scattering. To single out the motions of C-PC hydrogen (H) atoms in various trehalose/water environments, measurements were performed in deuterated trehalose and heavy water (D2O). We report that trehalose decreases the internal C-PC dynamics, as shown by a reduced diffusion coefficient of protein H atoms. By fitting the Elastic Incoherent Structure Factorâwhich gives access to the âgeometryâ of the internal proton motionsâwith the model of diffusion inside a sphere, we found that the presence of trehalose induces a significantly higher proportion of immobile C-PC hydrogens. We investigated, by elastic neutron scattering, the mean square displacements (MSDs) of deuterated trehalose/D2O-embedded C-PC as a function of temperature in the range of 40â318 K. Between 40 and âŒ225 K, harmonic MSDs of C-PC are slightly smaller in samples containing trehalose. Above a transition temperature of âŒ225 K, we observed anharmonic motions in all trehalose/water-coated C-PC samples. In the hydrated samples, MSDs are not significantly changed by addition of 15% trehalose but are slightly reduced by 30% trehalose. In opposition, no dynamical transition was detected in dry trehalose-embedded C-PC, whose hydrogen motions remain harmonic up to 318 K. These results suggest that a role of trehalose would be to stabilize proteins by inhibiting some fluctuations at the origin of protein unfolding and denaturation
Crystal-like high frequency phonons in the amorphous phases of solid water
The high frequency dynamics of low- (LDA) and high-density amorphous-ice
(HDA) and of cubic ice (I_c) has been measured by inelastic X-ray Scattering
(IXS) in the 1-15 nm^{-1} momentum transfer (Q) range. Sharp phonon-like
excitations are observed, and the longitudinal acoustic branch is identified up
to Q = 8nm^{-1} in LDA and I_c and up to 5nm^{-1} in HDA. The narrow width of
these excitations is in sharp contrast with the broad features observed in all
amorphous systems studied so far. The "crystal-like" behavior of amorphous
ices, therefore, implies a considerable reduction in the number of decay
channels available to sound-like excitations which is assimilated to low local
disorder.Comment: 4 pages, 3 figure
Competing coexisting phases in 2D water
International audienceThe properties of bulk water come from a delicate balance of interactions on length scales encompassing several orders of magnitudes: i) the Hydrogen Bond (HBond) at the molecular scale and ii) the extension of this HBond network up to the macroscopic level. Here, we address the physics of water when the three dimensional extension of the HBond network is frustrated, so that the water molecules are forced to organize in only two dimensions. We account for the large scale fluctuating HBond network by an analytical mean-field percolation model. This approach provides a coherent interpretation of the different events experimentally (calorimetry, neutron, NMR, near and far infra-red spectroscopies) detected in interfacial water at 160, 220 and 250 K. Starting from an amorphous state of water at low temperature, these transitions are respectively interpreted as the onset of creation of transient low density patches of 4-HBonded molecules at 160 K, the percolation of these domains at 220 K and finally the total invasion of the surface by them at 250 K. The source of this surprising behaviour in 2D is the frustration of the natural bulk tetrahedral local geometry and the underlying very significant increase in entropy of the interfacial water molecules
Liquid-Liquid Phase Transition for an Attractive Isotropic Potential with Wide Repulsive Range
Recent experimental and theoretical results have shown the existence of a
liquid-liquid phase transition in isotropic systems, such as biological
solutions and colloids, whose interaction can be represented via an effective
potential with a repulsive soft-core and an attractive part. We investigate how
the phase diagram of a schematic general isotropic system, interacting via a
soft-core squared attractive potential, changes by varying the parameters of
the potential. It has been shown that this potential has a phase diagram with a
liquid-liquid phase transition in addition to the standard gas-liquid phase
transition and that, for a short-range soft-core, the phase diagram resulting
from molecular dynamics simulations can be interpreted through a modified van
der Waals equation. Here we consider the case of soft-core ranges comparable
with or larger than the hard-core diameter. Because an analysis using molecular
dynamics simulations of such systems or potentials is too time-demanding, we
adopt an integral equation approach in the hypernetted-chain approximation.
Thus we can estimate how the temperature and density of both critical points
depend on the potential's parameters for large soft-core ranges. The present
results confirm and extend our previous analysis, showing that this potential
has two fluid-fluid critical points that are well separated in temperature and
in density only if there is a balance between the attractive and repulsive part
of the potential. We find that for large soft-core ranges our results satisfy a
simple relation between the potential's parameters
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