Literature DB >> 19777088

Conformational Entropy of an Ideal Cross-Linking Polymer Chain.

Oleg K Vorov1, Dennis R Livesay, Donald J Jacobs.   

Abstract

We present a novel analytical method to calculate conformational entropy of ideal cross-linking polymers from the configuration integral by employing a Mayer series expansion. Mayer-functions describing chemical bonds within the chain and for cross-links are sharply peaked over the temperature range of interest, and, are well approximated as statistically weighted Dirac delta-functions that enforce distance constraints. All geometrical deformations consistent with a set of distance constraints are integrated over. Exact results for a contiguous series of connected loops are employed to substantiate the validity of a previous phenomenological distance constraint model that describes protein thermodynamics successfully based on network rigidity.

Entities:  

Year:  2008        PMID: 19777088      PMCID: PMC2748956          DOI: 10.3390/e10030285

Source DB:  PubMed          Journal:  Entropy (Basel)        ISSN: 1099-4300            Impact factor:   2.524


  26 in total

Review 1.  What can we learn about protein folding from Ising-like models?

Authors:  V Muñoz
Journal:  Curr Opin Struct Biol       Date:  2001-04       Impact factor: 6.809

2.  Heat capacity of hydrogen-bonded networks: an alternative view of protein folding thermodynamics.

Authors:  A Cooper
Journal:  Biophys Chem       Date:  2000-05-31       Impact factor: 2.352

3.  Protein folding: could hydrophobic collapse be coupled with hydrogen-bond formation?

Authors:  Ariel Fernández; József Kardos; Yuji Goto
Journal:  FEBS Lett       Date:  2003-02-11       Impact factor: 4.124

4.  A measure of conformational entropy change during thermal protein unfolding using neutron spectroscopy.

Authors:  Jörg Fitter
Journal:  Biophys J       Date:  2003-06       Impact factor: 4.033

5.  Denatured states of ribonuclease A have compact dimensions and residual secondary structure.

Authors:  T R Sosnick; J Trewhella
Journal:  Biochemistry       Date:  1992-09-08       Impact factor: 3.162

6.  Conserved quantitative stability/flexibility relationships (QSFR) in an orthologous RNase H pair.

Authors:  Dennis R Livesay; Donald J Jacobs
Journal:  Proteins       Date:  2006-01-01

Review 7.  A backbone-based theory of protein folding.

Authors:  George D Rose; Patrick J Fleming; Jayanth R Banavar; Amos Maritan
Journal:  Proc Natl Acad Sci U S A       Date:  2006-10-30       Impact factor: 11.205

8.  Conformational entropy in molecular recognition by proteins.

Authors:  Kendra King Frederick; Michael S Marlow; Kathleen G Valentine; A Joshua Wand
Journal:  Nature       Date:  2007-07-19       Impact factor: 49.962

Review 9.  Additivity principles in biochemistry.

Authors:  K A Dill
Journal:  J Biol Chem       Date:  1997-01-10       Impact factor: 5.157

10.  Decomposition of the free energy of a system in terms of specific interactions. Implications for theoretical and experimental studies.

Authors:  A E Mark; W F van Gunsteren
Journal:  J Mol Biol       Date:  1994-07-08       Impact factor: 5.469

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  4 in total

1.  Computing the conformational entropy for RNA folds.

Authors:  Liang Liu; Shi-Jie Chen
Journal:  J Chem Phys       Date:  2010-06-21       Impact factor: 3.488

2.  Nonadditivity in conformational entropy upon molecular rigidification reveals a universal mechanism affecting folding cooperativity.

Authors:  Oleg K Vorov; Dennis R Livesay; Donald J Jacobs
Journal:  Biophys J       Date:  2011-02-16       Impact factor: 4.033

Review 3.  Ensemble-based methods for describing protein dynamics.

Authors:  Donald J Jacobs
Journal:  Curr Opin Pharmacol       Date:  2010-10-19       Impact factor: 5.547

4.  The Effect of Cross-Linking Type on EPDM Elastomer Dynamics and Mechanical Properties: A Molecular Dynamics Simulation Study.

Authors:  Yajian Wang; Huifang Liu; Pengpeng Li; Linbing Wang
Journal:  Polymers (Basel)       Date:  2022-03-24       Impact factor: 4.329

  4 in total

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