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200 papers

We refine a protein model that reproduces fundamental aspects of protein thermodynamics. The model exhibits two transitions, hot and cold unfolding. The number of relevant parameters is reduced to three: 1) binding energy of folding…

Condensed Matter · Physics 2007-05-23 Audun Bakk , Johan S. Hoye , Alex Hansen , Kim Sneppen

Quantum-mechanical van der Waals dispersion interactions play an essential role for both intra-protein and protein-water interactions -- the two main driving forces for the structure and dynamics of proteins in aqueous solution. Typically,…

Chemical Physics · Physics 2019-10-22 Martin Stöhr , Alexandre Tkatchenko

We have simulated structure and dynamics of water in the grooves of a DNA duplex using moleculear dynamics simulations. We find signatures of a dynamical transition in both translational and orientational dynamics of water molecules in both…

Soft Condensed Matter · Physics 2008-09-23 Debasmita Biswal , Biman Jana , Subrata Pal , Biman Bagchi

Co$_3$O$_4$ is an important catalyst for the oxidation of organic molecules in the liquid phase. Still, understanding the atomistic details of Co$_3$O$_4$-water interfaces under operando conditions remains extremely challenging. While ab…

Chemical Physics · Physics 2025-09-03 Amir Omranpour , Jörg Behler

Freezing in the vicinity of water-vapor interfaces is of considerable interest to a wide range of disciplines, most notably the atmospheric sciences. In this work, we use molecular dynamics and two advanced sampling techniques, forward flux…

Statistical Mechanics · Physics 2014-11-04 Amir Haji-Akbari , Ryan S. DeFever , Sapna Sarupria , Pablo G. Debenedetti

There is a long-standing question about the molecular configuration of interfacial water molecules in the proximity of solid surfaces, particularly carbon atoms which play a crucial role in electrochemistry and biology. In this study, the…

Statistical Mechanics · Physics 2021-03-03 Iman Ahmadabadi , Ali Esfandiar , Ali Hassanali , Mohammad Reza Ejtehadi

We investigate the structural properties of liquid water at near ambient conditions using first-principles molecular dynamics simulations based on a semilocal density functional augmented with nonlocal van der Waals interactions. The…

Soft Condensed Matter · Physics 2016-08-01 Giacomo Miceli , Stefano de Gironcoli , Alfredo Pasquarello

Interfaces are a most common motif in complex systems. To understand how the presence of interfaces affect hydrophobic phenomena, we use molecular simulations and theory to study hydration of solutes at interfaces. The solutes range in size…

Soft Condensed Matter · Physics 2014-09-05 Amish J. Patel , Patrick Varilly , Sumanth N. Jamadagni , Hari Acharya , Shekhar Garde , David Chandler

Copper is a highly promising catalyst for the electrochemical CO$_2$ reduction reaction (CO2RR) since it is the only pure metal that can form highly added-value products such as ethylene and ethanol. Since the CO2RR takes place in aqueous…

Materials Science · Physics 2025-09-23 Linus C. Erhard , Johannes Schörghuber , Aleix Comas-Vives , Georg K. H. Madsen

Graphene nanochannels are relevant for their possible applications, as in water purification, and for the challenge of understanding how they change the properties of confined liquids. Here, we use all-atom molecular dynamics simulations to…

Soft Condensed Matter · Physics 2021-03-25 Carles Calero , Giancarlo Franzese

We use molecular dynamics simulations in two dimensions to investigate the possibility that a core-softened potential can reproduce static and dynamic anomalies found experimentally in liquid water: (i) the increase in specific volume upon…

Soft Condensed Matter · Physics 2009-10-31 A. Scala , M. Reza Sadr-Lahijany , N. Giovambattista , S. V. Buldyrev , H. E. Stanley

Recently is was discovered in various applications that many physical and chemical properties of water change their temperature dependence between about 35 and 60 degrees Celsius. In particular, heat conductance, light absorption, and…

Understanding the dynamic nature of the semiconductor-water interface is crucial for developing efficient photoelectrochemical water splitting catalysts, as it governs reactivity through charge and mass transport. In this study, we employ…

Chemical Physics · Physics 2024-05-03 Sagarmoy Mandal , Tushar Kanti Ghosh

I have investigated the structural and dynamic properties of water by performing a series of molecular dynamic simulations in the range of temperatures from 213 K to 360 K, using the Simple Point Charge-Extended (SPC/E) model. I performed…

Soft Condensed Matter · Physics 2010-02-23 M. G. Campo

Despite widespread interest, a detailed understanding of the dynamics of proton transfer at interfaces is lacking. Here we use ab initio molecular dynamics to unravel the connection between interfacial water structure and proton transfer…

Materials Science · Physics 2014-03-12 Gabriele Tocci , Angelos Michaelides

We formulate a microscopic, no adjustable parameter, theory of activated relaxation in supercooled liquids directly in terms of the repulsive and attractive forces within the framework of pair correlations. Under isochoric conditions,…

Statistical Mechanics · Physics 2016-07-18 Zachary E. Dell , Kenneth S. Schweizer

In simulations of aqueous systems it is common to freeze the bond vibration and angle bending modes in water to allow for a longer time-step $\delta t$ for integrating the equations of motion. Thus $\delta t = 2$ fs is often used in…

Soft Condensed Matter · Physics 2023-08-17 Dilipkumar N. Asthagiri , Thomas L. Beck

The interface between liquid water and the Pt(111) metal surface is characterized structurally and thermodynamically via reactive molecular dynamics (MD) simulations within the ReaxFF framework. The formation of a distinct buckled adsorbate…

Chemical Physics · Physics 2021-03-19 Christoph Karsten Jung , Laura Braunwarth , Andrey Sinyavskiy , Timo Jacob

Interfacial interactions significantly alter the fundamental properties of water confined in mesoporous structures, with crucial implications for geological, physicochemical, and biological processes. Herein, we focused on the effect of…

The effect of temperature on friction and slip at the liquid-solid interface has attracted attention over the last twenty years, both numerically and experimentally. However, the role of temperature on slip close to the glass transition has…

Soft Condensed Matter · Physics 2023-02-22 Suzanne Lafon , Alexis Chennevière , Frédéric Restagno , Samy Merabia , Laurent Joly