(Q33425252)

English

Anti-cooperativity and cooperativity in hydrophobic interactions: Three-body free energy landscapes and comparison with implicit-solvent potential functions for proteins

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scholarly article

1 reference

Europe PubMed Central

PubMed publication ID

26 July 2017

Anti-cooperativity and cooperativity in hydrophobic interactions: Three-body free energy landscapes and comparison with implicit-solvent potential functions for proteins (English)

1 reference

Europe PubMed Central

PubMed publication ID

26 July 2017

1 reference

based on heuristic

inferred from title

energy landscape

1 reference

based on heuristic

inferred from title

object named as

Seishi Shimizu

1

0 references

author name string

Hue Sun Chan

2

1 reference

Europe PubMed Central

PubMed publication ID

26 July 2017

language of work or name

0 references

publication date

1 July 2002

1 reference

Europe PubMed Central

PubMed publication ID

26 July 2017

1 reference

Europe PubMed Central

PubMed publication ID

26 July 2017

48

1 reference

Europe PubMed Central

PubMed publication ID

26 July 2017

1

1 reference

Europe PubMed Central

PubMed publication ID

26 July 2017

15-30

1 reference

Europe PubMed Central

PubMed publication ID

26 July 2017

Some factors in the interpretation of protein denaturation

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Protein Denaturation

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Dominant forces in protein folding

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Temperature and length scale dependence of hydrophobic effects and their possible implications for protein folding.

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Polar group burial contributes more to protein stability than nonpolar group burial

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Additivity principles in biochemistry

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Collective properties of hydration: long range and specificity of hydrophobic interactions.

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Solvent-induced free energy landscape and solute-solvent dynamic coupling in a multielement solute.

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Comparing folding codes for proteins and polymers

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Folding alphabets.

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Protein folding. Matching speed and locality.

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

On the origin of the cooperativity of protein folding: implications from model simulations

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Medium- and long-range interaction parameters between amino acids for predicting three-dimensional structures of proteins

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Knowledge-based potentials for proteins

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Statistical potentials extracted from protein structures: how accurate are they?

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Pair potentials for protein folding: choice of reference states and sensitivity of predicted native states to variations in the interaction schemes

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Lattice protein folding with two and four-body statistical potentials.

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Can a pairwise contact potential stabilize native protein folds against decoys obtained by threading?

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Differences between pair and bulk hydrophobic interactions

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Simulating the minimum core for hydrophobic collapse in globular proteins

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Quantification of the hydrophobic interaction by simulations of the aggregation of small hydrophobic solutes in water

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Molecular simulation study of cooperativity in hydrophobic association

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

A desolvation barrier to hydrophobic cluster formation may contribute to the rate-limiting step in protein folding

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Configuration-dependent heat capacity of pairwise hydrophobic interactions.

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

From Levinthal to pathways to funnels

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Theory of protein folding: the energy landscape perspective

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Pathways to a protein folding intermediate observed in a 1-microsecond simulation in aqueous solution

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Long timescale simulations

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

The interpretation of protein structures: Estimation of static accessibility

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Areas, volumes, packing and protein structure

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Solvent-accessible surfaces of proteins and nucleic acids

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Solvation energy in protein folding and binding

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Accessible surface areas as a measure of the thermodynamic parameters of hydration of peptides

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

The enthalpy change in protein folding and binding: refinement of parameters for structure-based calculations.

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Effective energy function for proteins in solution

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Discrimination of the native from misfolded protein models with an energy function including implicit solvation

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Implicit solvent models

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Solvation: how to obtain microscopic energies from partitioning and solvation experiments

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

"New view" of protein folding reconciled with the old through multiple unfolding simulations.

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Native protein sequences are close to optimal for their structures

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

An information theory model of hydrophobic interactions

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

A five-site model for liquid water and the reproduction of the density anomaly by rigid, nonpolarizable potential functions

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

NOE data demonstrating a compact unfolded state for an SH3 domain under non-denaturing conditions.

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Calculation of ensembles of structures representing the unfolded state of an SH3 domain.

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Comparison of simple potential functions for simulating liquid water

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Is water structure around hydrophobic groups clathrate-like?

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Hydration forces

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

The Mechanism of Hydrophobic Solvation Depends on Solute Radius

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Decomposition of the Free Energy of a System in Terms of Specific Interactions

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Hydrophobic Effects on a Molecular Scale

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Hydrophobic Force Field as a Molecular Alternative to Surface-Area Models

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

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

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Energetic Components of Cooperative Protein Folding

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Peptide folding simulations: no solvent required?

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Protein surface area defined

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Surface topography dependence of biomolecular hydrophobic hydration

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Interaction of explicit solvent with hydrophobic/philic/charged residues of a protein: residue character vs. conformational context

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

As simple as can be?

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Modeling protein density of states: additive hydrophobic effects are insufficient for calorimetric two-state cooperativity

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Polymer principles of protein calorimetric two-state cooperativity

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Towards a consistent modeling of protein thermodynamic and kinetic cooperativity: how applicable is the transition state picture to folding and unfolding?

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Molecular dynamics study of hydrophobic aggregation in water/methane/methanol systems

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Application of scaled particle theory to model the hydrophobic effect: implications for molecular association and protein stability

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

The heat capacity of proteins

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Heat capacity and compactness of denatured proteins

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Hydrophobicity at Small and Large Length Scales

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

On the unfolding of alpha-lytic protease and the role of the pro region

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Chain-like conformation of heat-denatured ribonuclease A and cytochrome c as evidenced by solution X-ray scattering

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

The entropy driven hydrophobic effect as a function of solute—solvent interactions. A molecular dynamics study

1 reference

https://api.crossref.org/works/10.1002%2FPROT.10108

21 January 2018

Identifiers

10.1002/PROT.10108

1 reference

Europe PubMed Central

PubMed publication ID

26 July 2017

PubMed publication ID

1 reference

Europe PubMed Central

PubMed publication ID

26 July 2017

ResearchGate publication ID

0 references

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