Literature DB >> 19548705

Langevin thermostat for rigid body dynamics.

Ruslan L Davidchack1, Richard Handel, M V Tretyakov.   

Abstract

We present a new method for isothermal rigid body simulations using the quaternion representation and Langevin dynamics. It can be combined with the traditional Langevin or gradient (Brownian) dynamics for the translational degrees of freedom to correctly sample the canonical distribution in a simulation of rigid molecules. We propose simple, quasisymplectic second-order numerical integrators and test their performance on the TIP4P model of water. We also investigate the optimal choice of thermostat parameters.

Entities:  

Year:  2009        PMID: 19548705     DOI: 10.1063/1.3149788

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


  36 in total

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Journal:  Circulation       Date:  2021-04-09       Impact factor: 29.690

8.  Modulatory Effects of Acidic pH and Membrane Potential on the Adsorption of pH-Sensitive Peptides to Anionic Lipid Membrane.

Authors:  Dayane Dos Santos Alvares; Ingrid Bernardes Santana Martins; Taisa Giordano Viegas; Mario Sergio Palma; Alexandre Suman de Araujo; Sidney Jurado de Carvalho; João Ruggiero Neto
Journal:  Membranes (Basel)       Date:  2021-04-22

9.  Staring at the Naked Goddess: Unraveling the Structure and Reactivity of Artemis Endonuclease Interacting with a DNA Double Strand.

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10.  DNA hybridization kinetics: zippering, internal displacement and sequence dependence.

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Journal:  Nucleic Acids Res       Date:  2013-08-08       Impact factor: 16.971

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