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We construct a Hamiltonian for a single domain protein where the contact enthalpy and the chain entropy decrease linearly with the number of native contacts. The hydration effect upon protein unfolding is included by modeling water as ideal…

凝聚态物理 · 物理学 2009-11-07 Audun Bakk , Johan S. Hoye , Alex Hansen

The preference of water self-ions (hydronium and hydroxide) towards air/oil-water interfaces is one of the hottest topics in water research due to its importance for understanding properties, phenomena, and reactions of interfaces. In this…

化学物理 · 物理学 2025-02-04 Pengchao Zhang , Xuefei Xu

Conformational transitions of flexible molecules, especially those driven by hydrophobic effects, tend to be hindered by desolvation barriers. For such transitions, it is thus important to characterize and understand the interplay between…

软凝聚态物质 · 物理学 2021-03-16 Debdas Dhabal , Zhitong Jiang , Amish J. Patel

The adhesion of flowing particles and biological cells over fixed collecting surfaces is vitally important in diverse situations and potentially controlled by small-scale surface heterogeneity on the particle. Differences in the behavior of…

软凝聚态物质 · 物理学 2015-06-19 Marina Bendersky , Maria M. Santore , Jeffrey M. Davis

We theoretically study in detail the hydrodynamic coupling of two equal-sized colloidal spheres at low Reynolds numbers assuming the particles to be harmonically trapped with respect to both their positions and orientations. By taking into…

软凝聚态物质 · 物理学 2007-05-23 Michael Reichert , Holger Stark

Solvent interactions, particularly hydration, are vital in chemical and biochemical systems. Model systems unveil microscopic details of such interactions. We uncover a specific hydrogen-bonding motif of the biomolecular building block…

The problem of the helix-coil transition of biopolymers in explicit solvents, like water, with the ability for hydrogen bonding with solvent is addressed analytically using a suitably modified version of the Generalized Model of Polypeptide…

The molecular dynamics in the ambient-pressure solid phase of (1,1,2)-trichloroethane is studied by means of broadband dielectric spectroscopy and molecular dynamics simulations. The dielectric spectra of polycrystalline samples obtained by…

The dynamics of ideally polarizable spherical particles in concentrated suspensions under the effects of nonlinear electrokinetic phenomena is analysed using large-scale numerical simulations. Particles are assumed to carry no net charge…

软凝聚态物质 · 物理学 2019-07-23 Siamak Mirfendereski , Jae Sung Park

We present an experimentally guided, multi-phase, multi-species polyelectrolyte gel model to make quantitative predictions on the electro-chemical properties of articular cartilage. The mixture theory consists of two different types of…

组织与器官 · 定量生物学 2013-08-22 Sarthok Sircar , Elizabeth Aisenbrey , Stephanie J. Bryant , David M. Bortz

Understanding concentrated electrolytes requires a theory that spans local hydration and mesoscale interfacial assembly. We present an integrated workflow-SCOPE-that combines (i) enhanced sampling focused on a single Li+ ion, (ii)…

软凝聚态物质 · 物理学 2026-01-27 Xiaoxu Ruan , Fabrice Roncoroni , David Prendergast , Tod A Pascal

Hard-sphere model systems are well-suited in both experiment and simulations to investigate fundamental aspects of the crystallization of fluids. In experiments on colloidal models of hard-sphere fluids, the uid is unavoidably at contact…

软凝聚态物质 · 物理学 2021-04-28 Jorge R. Espinosa , Carlos Vega , Chantal Valeriani , Daan Frenkel , Eduardo Sanz

Salt water is ubiquitous, playing crucial roles in geological and physiological processes. Despite centuries of investigations, whether or not water's structure is drastically changed by dissolved ions is still debated. Based on density…

化学物理 · 物理学 2022-02-14 Chunyi Zhang , Shuwen Yue , Athanassios Z. Panagiotopoulos , Michael L. Klein , Xifan Wu

Enzymes show two distinct transport behaviors in the presence of their substrates in solution. First, their diffusivity enhances with increasing substrate concentration. In addition, enzymes perform directional motion toward regions with…

生物物理 · 物理学 2018-11-06 Farzad Mohajerani , Xi Zhao , Ambika Somasundar , Darrell Velegol , Ayusman Sen

A mixture of hard-sphere particles and model emulsion droplets is studied with a Brownian dynamics simulation. We find that the addition of nonwetting emulsion droplets to a suspension of pure hard spheres can lead to both gas-liquid and…

软凝聚态物质 · 物理学 2015-03-13 Andrea Fortini

A major goal of many spectroscopic techniques is to provide comprehensive information on the local chemical environment. Electron transfer mediated decay (ETMD) is a sensitive probe of the environment since it is actively involved in this…

The study of competitive and cooperative adsorption of functionalized molecules such as polymers, rheology modifiers and surfactant molecules on colloidal particles immersed in a solvent is undertaken using coarse grained, dissipative…

软凝聚态物质 · 物理学 2014-06-13 A. Gama Goicochea

Hydrogen incorporation in native surface oxides of metal alloys often controls the onset of metal hydriding, with implications for materials corrosion and hydrogen storage. A key representative example is titania, which forms as a…

The electric double layer is an important structure that appears at charged liquid interfaces, and it determines the performance of various electrochemical devices such as supercapacitors and electrokinetic energy converters. Here the…

软凝聚态物质 · 物理学 2023-08-15 Haruto Iwasaki , Yasuyuki Kimura , Yuki Uematsu

In solution, electrically like-charged particles can experience a strong and long-ranged attraction that leads to the formation of stable, slowly reorganizing clusters. The attractive force underpinning this spontaneous organization process…

软凝聚态物质 · 物理学 2026-01-14 Sida Wang , Angela Le , Rowan Walker-Gibbons , Madhavi Krishnan
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