(Q47822596)

5 February 2018

title

Atomic simulations of protein folding, using the replica exchange algorithm. (English)

1 reference

5 February 2018

0 references

3

Angel E García

1 reference

5 February 2018

author name string

Hugh Nymeyer

series ordinal

1

1 reference

5 February 2018

S Gnanakaran

series ordinal

2

1 reference

5 February 2018

language of work or name

English

0 references

publication date

1 January 2004

1 reference

5 February 2018

published in

Methods in Enzymology

1 reference

5 February 2018

volume

383

1 reference

5 February 2018

page(s)

119-149

1 reference

5 February 2018

Theory of protein folding: the energy landscape perspective

cites work

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

The energy landscape theory of protein folding: insights into folding mechanisms and scenarios

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Peptide folding simulations

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Mathematical analysis of coupled parallel simulations

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Simulations of beta-hairpin folding confined to spherical pores using distributed computing

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

COMPUTING: Screen Savers of the World Unite!

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Optimized Monte Carlo data analysis

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

THE weighted histogram analysis method for free-energy calculations on biomolecules. I. The method

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

First-principles calculation of the folding free energy of a three-helix bundle protein

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Protein and peptide folding explored with molecular simulations

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

From folding theories to folding proteins: a review and assessment of simulation studies of protein folding and unfolding

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Probing the folding free energy landscape of the Src-SH3 protein domain

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Prediction of peptide conformation by multicanonical algorithm: New approach to the multiple-minima problem

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Peptide loop-closure kinetics from microsecond molecular dynamics simulations in explicit solvent

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Evaluation of a fast implicit solvent model for molecular dynamics simulations

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Long time dynamics of Met-enkephalin: comparison of explicit and implicit solvent models

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Replica Monte Carlo simulation of spin glasses.

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Simulated Tempering: A New Monte Carlo Scheme

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Replica-exchange molecular dynamics method for protein folding

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Structure of Met-enkephalin in explicit aqueous solution using replica exchange molecular dynamics

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Folding of a highly conserved diverging turn motif from the SH3 domain

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Exploring the energy landscape of a beta hairpin in explicit solvent

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

The free energy landscape for beta hairpin folding in explicit water

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Hybrid Monte Carlo with multidimensional replica exchanges: conformational equilibria of the hypervariable regions of a llama VHH antibody domain

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Can a continuum solvent model reproduce the free energy landscape of a beta -hairpin folding in water?

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Replica-exchange simulated tempering method for simulations of frustrated systems

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Helix-coil transitions of amino-acid homo-oligomers in aqueous solution studied by multicanonical simulations

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Replica-exchange Monte Carlo method for the isobaric–isothermal ensemble

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Multidimensional replica-exchange method for free-energy calculations

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Replica-exchange multicanonical algorithm and multicanonical replica-exchange method for simulating systems with rough energy landscape

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Replica-exchange multicanonical and multicanonical replica-exchange Monte Carlo simulations of peptides. II. Application to a more complex system

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Replica-exchange multicanonical and multicanonical replica-exchange Monte Carlo simulations of peptides. I. Formulation and benchmark test

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Pressure-induced protein-folding/unfolding kinetics

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Optimization by Simulated Annealing

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Molecular dynamics with coupling to an external bath

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Alpha-helical stabilization by side chain shielding of backbone hydrogen bonds

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Simulation of the folding equilibrium of α-helical peptides: A comparison of the generalized Born approximation with explicit solvent

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Folding a protein in a computer: An atomic description of the folding/unfolding of protein A

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

An information theory model of hydrophobic interactions

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

Molecular Theories and Simulation of Ions and Polar Molecules in Water

1 reference

https://api.crossref.org/works/10.1016%2FS0076-6879%2804%2983006-4

7 January 2021

10.1016/S0076-6879(04)83006-4

Identifiers

DOI

1 reference

5 February 2018

DBLP publication ID

books/el/04/NymeyerGG04

0 references

1 reference

5 February 2018