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231224s2015 xx |||||o 00| ||eng c |
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|a 10.1002/jcc.23799
|2 doi
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|a eng
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1 |
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|a De Biase, Pablo M
|e verfasserin
|4 aut
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| 245 |
1 |
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|a BROMOC suite
|b Monte Carlo/Brownian dynamics suite for studies of ion permeation and DNA transport in biological and artificial pores with effective potentials
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|c 2015
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|a Text
|b txt
|2 rdacontent
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|a ƒaComputermedien
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|2 rdamedia
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|a ƒa Online-Ressource
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|2 rdacarrier
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|a Date Completed 18.02.2016
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|a Date Revised 02.02.2015
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|a published: Print-Electronic
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|a Citation Status MEDLINE
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|a © 2014 Wiley Periodicals, Inc.
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|a The transport of ions and solutes by biological pores is central for cellular processes and has a variety of applications in modern biotechnology. The time scale involved in the polymer transport across a nanopore is beyond the accessibility of conventional MD simulations. Moreover, experimental studies lack sufficient resolution to provide details on the molecular underpinning of the transport mechanisms. BROMOC, the code presented herein, performs Brownian dynamics simulations, both serial and parallel, up to several milliseconds long. BROMOC can be used to model large biological systems. IMC-MACRO software allows for the development of effective potentials for solute-ion interactions based on radial distribution function from all-atom MD. BROMOC Suite also provides a versatile set of tools to do a wide variety of preprocessing and postsimulation analysis. We illustrate a potential application with ion and ssDNA transport in MspA nanopore
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|a Journal Article
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|a Research Support, N.I.H., Extramural
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|a Research Support, Non-U.S. Gov't
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|a Brownian dynamics
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|a effective potential
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|a grand canonical Monte Carlo
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|a inverse Monte Carlo
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|a ion and DNA transport
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|a nanopore
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|a Ions
|2 NLM
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|a DNA
|2 NLM
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|a 9007-49-2
|2 NLM
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|a Markosyan, Suren
|e verfasserin
|4 aut
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1 |
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|a Noskov, Sergei
|e verfasserin
|4 aut
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| 773 |
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|i Enthalten in
|t Journal of computational chemistry
|d 1984
|g 36(2015), 4 vom: 05. Feb., Seite 264-71
|w (DE-627)NLM098138448
|x 1096-987X
|7 nnas
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| 773 |
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|g volume:36
|g year:2015
|g number:4
|g day:05
|g month:02
|g pages:264-71
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|u http://dx.doi.org/10.1002/jcc.23799
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