Literature DB >> 19045284

Energy landscapes for diffusion: analysis of cage-breaking processes.

Vanessa K de Souza1, David J Wales.   

Abstract

A wide spectrum of potential energy barriers exists for binary Lennard-Jones systems. Here we examine the barriers and cage-breaking rearrangements that are pertinent to long-term diffusion. Single-step cage-breaking processes, which follow high-barrier routes, are identified, and different methods and criteria for defining a cage-breaking process are considered. We examine the extent to which a description of cage-breaking within the energy landscape is a description of long-term diffusion. This description includes the identification of cage-breaks that are reversed, and those that are productive towards long-term diffusion. At low temperatures, diffusion is adequately described by productive cage-breaks, or by considering all cage-breaks and accounting for the effect of reversals. To estimate the diffusion constant we require only the mean square displacement of a cage-break, the average waiting time for a cage-break, and a measure of the number of reversed cage-breaks. Cage-breaks can be visualized within the potential energy landscape using disconnectivity graphs, and we compare the use of productive cage-breaks with previous definitions of "megabasins" or "metabasins."

Year:  2008        PMID: 19045284     DOI: 10.1063/1.2992128

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   3.488


  10 in total

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Review 4.  Membrane Protein Structure, Function, and Dynamics: a Perspective from Experiments and Theory.

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5.  Intrinsically disordered energy landscapes.

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6.  The Energy Landscape Perspective: Encoding Structure and Function for Biomolecules.

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10.  Uncovering β-relaxations in amorphous phase-change materials.

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  10 in total

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