Literature DB >> 15836175

A molecular dynamics study on universal properties of polymer chains in different solvent qualities. Part I. A review of linear chain properties.

Martin Oliver Steinhauser1.   

Abstract

This paper investigates the conformational and scaling properties of long linear polymer chains. These investigations are done with the aid of Monte Carlo (MC) and molecular dynamics (MD) simulations. Chain lengths that comprise several orders of magnitude to reduce errors of finite size scaling, including the effect of solvent quality, ranging from the athermal limit over the theta-transition to the collapsed state of chains are investigated. Also the effect of polydispersity on linear chains is included which is an important issue in the real fabrication of polymers. A detailed account of the hybrid MD and MC simulation model and the exploited numerical methods is given. Many results of chain properties in the extrapolated limit of infinite chain lengths are documented and universal properties of the chains within their universality class are given. An example of the difference between scaling exponents observed in actual solvents and those observed in the extremes of "good solvents" and "theta-solvents" in simulations is provided by comparing simulation results with experimental data on low density polyethylene. This paper is concluded with an outlook on the extension of this study to branched chain systems of many different branching types.

Entities:  

Year:  2005        PMID: 15836175     DOI: 10.1063/1.1846651

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


  17 in total

1.  Toward an accurate theoretical framework for describing ensembles for proteins under strongly denaturing conditions.

Authors:  Hoang T Tran; Rohit V Pappu
Journal:  Biophys J       Date:  2006-06-09       Impact factor: 4.033

2.  Quantitative assessments of the distinct contributions of polypeptide backbone amides versus side chain groups to chain expansion via chemical denaturation.

Authors:  Alex S Holehouse; Kanchan Garai; Nicholas Lyle; Andreas Vitalis; Rohit V Pappu
Journal:  J Am Chem Soc       Date:  2015-02-23       Impact factor: 15.419

3.  Conformations of intrinsically disordered proteins are influenced by linear sequence distributions of oppositely charged residues.

Authors:  Rahul K Das; Rohit V Pappu
Journal:  Proc Natl Acad Sci U S A       Date:  2013-07-30       Impact factor: 11.205

4.  Decoupling of size and shape fluctuations in heteropolymeric sequences reconciles discrepancies in SAXS vs. FRET measurements.

Authors:  Gustavo Fuertes; Niccolò Banterle; Kiersten M Ruff; Aritra Chowdhury; Davide Mercadante; Christine Koehler; Michael Kachala; Gemma Estrada Girona; Sigrid Milles; Ankur Mishra; Patrick R Onck; Frauke Gräter; Santiago Esteban-Martín; Rohit V Pappu; Dmitri I Svergun; Edward A Lemke
Journal:  Proc Natl Acad Sci U S A       Date:  2017-07-17       Impact factor: 11.205

5.  Polymer scaling laws of unfolded and intrinsically disordered proteins quantified with single-molecule spectroscopy.

Authors:  Hagen Hofmann; Andrea Soranno; Alessandro Borgia; Klaus Gast; Daniel Nettels; Benjamin Schuler
Journal:  Proc Natl Acad Sci U S A       Date:  2012-09-14       Impact factor: 11.205

6.  An Extended Guinier Analysis for Intrinsically Disordered Proteins.

Authors:  Wenwei Zheng; Robert B Best
Journal:  J Mol Biol       Date:  2018-03-21       Impact factor: 5.469

7.  Computing 3D Chromatin Configurations from Contact Probability Maps by Inverse Brownian Dynamics.

Authors:  Kiran Kumari; Burkhard Duenweg; Ranjith Padinhateeri; J Ravi Prakash
Journal:  Biophys J       Date:  2020-02-29       Impact factor: 4.033

8.  CAMELOT: A machine learning approach for coarse-grained simulations of aggregation of block-copolymeric protein sequences.

Authors:  Kiersten M Ruff; Tyler S Harmon; Rohit V Pappu
Journal:  J Chem Phys       Date:  2015-12-28       Impact factor: 3.488

Review 9.  Describing sequence-ensemble relationships for intrinsically disordered proteins.

Authors:  Albert H Mao; Nicholas Lyle; Rohit V Pappu
Journal:  Biochem J       Date:  2013-01-15       Impact factor: 3.857

10.  Quantitative characterization of intrinsic disorder in polyglutamine: insights from analysis based on polymer theories.

Authors:  Andreas Vitalis; Xiaoling Wang; Rohit V Pappu
Journal:  Biophys J       Date:  2007-05-25       Impact factor: 4.033

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