English
Related papers

Related papers: Microsecond-scale sucrose conformational dynamics …

200 papers

We present a new development of the force-coupling method (FCM) to address the accurate simulation of a large number of interacting micro-swimmers. Our approach is based on the squirmer model, which we adapt to the FCM framework, resulting…

Soft Condensed Matter · Physics 2015-12-21 Blaise Delmotte , Eric Keaveny , Franck Plouraboue , Eric Climent

Dynamics of adsorption and desorption of (4S)-N on amorphous solid water are analyzed using molecular dynamics simulations. The underlying potential energy surface was provided by machine-learned interatomic potentials. Binding energies…

Astrophysics of Galaxies · Physics 2020-09-22 Germán Molpeceres , Viktor Zaverkin , Johannes Kästner

The possibility to use sucrose solutions as medium for X-ray and neutron small-angle scattering experiments has been explored for dimyristoylphosphatidylcholine (DMPC) vesicles and mixed DMPC/C_(12)E_(8) aggregates. The influence of sucrose…

Biological Physics · Physics 2007-05-23 M. A. Kiselev , P. Lesieur , A. M. Kisselev , D. Lombardo , M. Killany , S. Lesieur

Glycerol-water mixtures were studied at molar concentrations ranging from $x_\text{gly} = 1$ (pure glycerol) to $x_\text{gly}=0.3$ using shear mechanical spectroscopy. We observed a low frequency mode in neat glycerol, similar to what is…

Soft Condensed Matter · Physics 2018-02-14 Mikkel H. Jensen , Catalin Gainaru , Christiane Alba-Simionesco , Tina Hecksher , Kristine Niss

We use a recently proposed method [Berthier L.; Biroli G.; Bouchaud J.P.; Cipelletti L.; El Masri D.; L'Hote D.; Ladieu F.; Pierno M. Science 2005, 310, 1797.] to obtain an approximation to the 4-point dynamic correlation function from…

Soft Condensed Matter · Physics 2009-08-27 D. Fragiadakis , R. Casalini , C. M. Roland

Coarse-graining of fully atomistic molecular dynamics simulations is a long-standing goal in order to allow the description of processes occurring on biologically relevant timescales. For example, the prediction of pathways, rates and…

Biological Physics · Physics 2020-06-12 Steffen Wolf , Benjamin Lickert , Simon Bray , Gerhard Stock

Recent experiments and theoretical studies strongly indicate that water exhibits a liquid-liquid phase transition (LLPT) in the supercooled domain. An open question is how the LLPT of water can affect the properties of aqueous solutions.…

The small-angle X-ray and neutron scattering, time resolved X-ray small-angle and wide-angle diffraction coupled with differential scanning calorimetry have been applied to the investigation of unilamellar and multilamellar…

Biological Physics · Physics 2009-11-07 M. A. Kiselev , P. Lesieur , A. M. Kisselev , D. Lombardo , M. Killany , S. Lesieur , M. Ollivon

We report results of molecular dynamics simulations of liquid water at the temperature T=277 K for a range of high pressure. One aim of the study was to test the model Amoeba potential for description of equilibrium structural properties…

Disordered Systems and Neural Networks · Physics 2015-05-27 Ramil M. Khusnutdinoff , Anatolii V. Mokshin

Molecular dynamics simulation is a prominent way of analyzing the dynamic properties of a system. The molecular dynamics simulation of diffusion, an important transport property, of dilute solution of cysteine in SPCE water at five…

Chemical Physics · Physics 2018-09-25 Hem Prasad Bhusal , Narayan Prasad Adhikari

Water shows numerous thermodynamic, dynamic, and structural anomalies. Recent experiments [Eichler et al. Phys. Rev. Lett. 134, 134101 (2025)], based on measurements of shear and bulk viscosities of liquid water up to 1.6 GPa, have reported…

Soft Condensed Matter · Physics 2026-01-27 José Martín-Roca , Alberto Zaragoza , Frédéric Caupin , Chantal Valeriani

The molasses tail in dense hard core fluids is investigated by extensive event-driven molecular dynamics simulation through the orientational autocorrelation functions. Near the fluid-solid phase transition, there exist three regimes in the…

Statistical Mechanics · Physics 2010-07-14 Masaharu Isobe , Berni J. Alder

Dynamic structuring of water is a key player in a large class of processes underlying biochemical and technological developments today, the latter often involving electric fields. However, the anisotropic coupling between the water…

Soft Condensed Matter · Physics 2019-05-29 Andreas Baer , Zoran Miličević , David M. Smith , Ana-Sunčana Smith

We study a coupled Fokker-Planck--Navier-Stokes (FPNS) system modeling the dynamics of interacting particles suspended in a viscous incompressible fluid, where the coupling occurs through a locally averaged Brinkman drag force. Our main…

Analysis of PDEs · Mathematics 2025-08-12 Roman Shvydkoy , Trevor Teolis

The stabilization of macromolecules is fundamental to developing biological formulations, such as vaccines and protein therapeutics. In this study, we employ coarse grained polymer models to investigate the impact of four sugars:…

Soft Condensed Matter · Physics 2025-11-26 Praveen Muralikrishnan , Jonathan W. P. Zajac , Caryn L. Heldt , Sarah L. Perry , Sapna Sarupria

Active suspensions encompass a wide range of complex fluids containing microscale energy-injecting particles, such as cells, bacteria or artificially powered active colloids. Because they are intrinsically non-equilibrium, active…

Soft Condensed Matter · Physics 2024-07-09 Zhouyang Ge , Gwynn J. Elfring

The influence of shape fluctuations on deformable thermosensitive microgels in aqueous solution is investigated by dynamic light scattering (DLS) and depolarized dynamic light scattering (DDLS). The systems under study consist of a solid…

Soft Condensed Matter · Physics 2009-02-20 S. Bolisetty , M. Hoffmann , S. Lekkala , Th. Hellweg , M. Ballauff , L. Harnau

1H spin-lattice relaxation experiments have been performed for water - Bovine Serum Al-bumin (BSA) mixtures including 20% wt and 40% wt of BSA. The experiments have been carried out in a frequency range encompassing three orders of…

Molecular simulations of the forced unfolding and refolding of biomolecules or molecular complexes allow to gain important kinetic, structural and thermodynamic information about the folding process and the underlying energy landscape. In…

Soft Condensed Matter · Physics 2021-05-26 Marco Oestereich , Jürgen Gauss , Gregor Diezemann

Understanding the gypsum (CaSO4.2H2O) formation pathway from aqueous solution has been the subject of intensive research in the past years. This interest stems from the fact that gypsum appears to fall into a broader category of crystalline…