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Berichte der Bunsengesellschaft für physikalische Chemie, 1982
Theoretical methods for studying protein motions have been outlined and some examples have been given. Simulation methods have shown that structural fluctuations in proteins cover a wide range in their magnitudes and time scales. Some indication of their biological role has been given, but the most important and interesting applications to protein ...
P G Debrunner, H Frauenfelder
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Theoretical methods for studying protein motions have been outlined and some examples have been given. Simulation methods have shown that structural fluctuations in proteins cover a wide range in their magnitudes and time scales. Some indication of their biological role has been given, but the most important and interesting applications to protein ...
P G Debrunner, H Frauenfelder
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Essential dynamics of proteins
Proteins: Structure, Function, and Bioinformatics, 1993AbstractAnalysis of extended molecular dynamics (MD) simulations of lysozyme in vacuo and in aqueous solution reveals that it is possible to separate the configurational space into two subspaces: (1) an “essential” subspace containing only a few degrees of freedom in which anharmonic motion occurs that comprises most of the positional fluctuations; and
AMADEI, A, LINSSEN, ABM, BERENDSEN, HJC
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Proteins: Structure, Function, and Genetics, 1997
MD simulations, currently the most detailed description of the dynamic evolution of proteins, are based on the repeated solution of a set of differential equations implementing Newton's second law. Many such systems are known to exhibit chaotic behavior, i.e., very small changes in initial conditions are amplified exponentially and lead to vastly ...
M, Braxenthaler +4 more
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MD simulations, currently the most detailed description of the dynamic evolution of proteins, are based on the repeated solution of a set of differential equations implementing Newton's second law. Many such systems are known to exhibit chaotic behavior, i.e., very small changes in initial conditions are amplified exponentially and lead to vastly ...
M, Braxenthaler +4 more
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Briefings Bioinform., 2019
Protein dynamics is central to all biological processes, including signal transduction, cellular regulation and biological catalysis. Among them, in-depth exploration of ligand-driven protein dynamics contributes to an optimal understanding of protein ...
Jing-Fang Yang +4 more
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Protein dynamics is central to all biological processes, including signal transduction, cellular regulation and biological catalysis. Among them, in-depth exploration of ligand-driven protein dynamics contributes to an optimal understanding of protein ...
Jing-Fang Yang +4 more
semanticscholar +1 more source
Protein Dynamism and Evolvability
Science, 2009The traditional view that proteins possess absolute functional specificity and a single, fixed structure conflicts with their marked ability to adapt and evolve new functions and structures. We consider an alternative, “avant-garde view” in which proteins are conformationally dynamic and exhibit functional promiscuity.
Nobuhiko, Tokuriki, Dan S, Tawfik
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Nature, 1976
In a discussion of the dynamics of protein folding two limiting models (random-search nucleation and chain propagation., diffusion–collision) are considered. It is suggested that the latter may have the dominant role in many proteins.
M, Karplus, D L, Weaver
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In a discussion of the dynamics of protein folding two limiting models (random-search nucleation and chain propagation., diffusion–collision) are considered. It is suggested that the latter may have the dominant role in many proteins.
M, Karplus, D L, Weaver
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Briefings Bioinform., 2019
Proteins are dynamical entities that undergo a plethora of conformational changes, accomplishing their biological functions. Molecular dynamics simulation and normal mode analysis methods have become the gold standard for studying protein dynamics ...
Zhong-Jie Liang +2 more
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Proteins are dynamical entities that undergo a plethora of conformational changes, accomplishing their biological functions. Molecular dynamics simulation and normal mode analysis methods have become the gold standard for studying protein dynamics ...
Zhong-Jie Liang +2 more
semanticscholar +1 more source
Nature, 1977
The dynamics of a folded globular protein (bovine pancreatic trypsin inhibitor) have been studied by solving the equations of motion for the atoms with an empirical potential energy function. The results provide the magnitude, correlations and decay of fluctuations about the average structure.
J A, McCammon, B R, Gelin, M, Karplus
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The dynamics of a folded globular protein (bovine pancreatic trypsin inhibitor) have been studied by solving the equations of motion for the atoms with an empirical potential energy function. The results provide the magnitude, correlations and decay of fluctuations about the average structure.
J A, McCammon, B R, Gelin, M, Karplus
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Current Opinion in Structural Biology, 2019
Proteins are not rigid bodies under their physiological conditions. Here we discuss a solution-phase structural proteomics technique, hydrogen deuterium exchange coupled with mass spectrometry (HDX-MS), as a means to study protein dynamics, which can ...
Jie Zheng +3 more
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Proteins are not rigid bodies under their physiological conditions. Here we discuss a solution-phase structural proteomics technique, hydrogen deuterium exchange coupled with mass spectrometry (HDX-MS), as a means to study protein dynamics, which can ...
Jie Zheng +3 more
semanticscholar +1 more source