Molecular dynamics simulations of domain motions of substrate-freeS-adenosyl- L-homocysteine hydrolase in solution

Dynamics Simulations ◽

3TA1-05 Investigation of Protein Domain Motions by Molecular Dynamics Simulations(The 47th Annual Meeting of the Biophysical Society of Japan)

Seibutsu Butsuri ◽

10.2142/biophys.49.s52_2 ◽

2009 ◽

Vol 49 (supplement) ◽

pp. S52

Author(s):

Hiroko Kondo ◽

Noriaki Okimoto ◽

Gentaro Morimoto ◽

Makoto Taiji

Keyword(s):

Molecular Dynamics ◽

Annual Meeting ◽

Protein Domain ◽

Biophysical Society ◽

Dynamics Simulations ◽

Hamiltonian replica exchange combined with elastic network analysis to enhance global domain motions in atomistic molecular dynamics simulations

Proteins Structure Function and Bioinformatics ◽

10.1002/prot.24695 ◽

2014 ◽

Vol 82 (12) ◽

pp. 3410-3419 ◽

Cited By ~ 8

Author(s):

Katja Ostermeir ◽

Martin Zacharias

Keyword(s):

Molecular Dynamics ◽

Network Analysis ◽

Replica Exchange ◽

Elastic Network ◽

Hamiltonian Replica Exchange ◽

Dynamics Simulations ◽

Tyr-317 Phosphorylation Increases Shc Structural Rigidity and Reduces Coupling of Domain Motions Remote from the Phosphorylation Site as Revealed by Molecular Dynamics Simulations

Journal of Biological Chemistry ◽

10.1074/jbc.m310598200 ◽

2003 ◽

Vol 279 (6) ◽

pp. 4657-4662 ◽

Cited By ~ 24

Author(s):

Atsushi Suenaga ◽

Anatoly B. Kiyatkin ◽

Mariko Hatakeyama ◽

Noriyuki Futatsugi ◽

Noriaki Okimoto ◽

...

Keyword(s):

Molecular Dynamics ◽

Phosphorylation Site ◽

Structural Rigidity ◽

Dynamics Simulations ◽

2P061 Investigation of Domain Motions in Proteins by Molecular Dynamics Simulations(Proteins-structure and structure-function relationship,Poster Presentations)

Seibutsu Butsuri ◽

10.2142/biophys.47.s128_2 ◽

2007 ◽

Vol 47 (supplement) ◽

pp. S128

Author(s):

Hiroko Kondo ◽

Atsushi Suenaga ◽

Noriyuki Futatsugi ◽

Ryoko Yanai ◽

Gentaro Morimoto ◽

...

Keyword(s):

Molecular Dynamics ◽

Structure Function ◽

Structure Function Relationship ◽

Function Relationship ◽

Dynamics Simulations ◽

Domain Motions ◽

Poster Presentations

Domain Motions in Phosphoglycerate Kinase using Hierarchical NEIMO Molecular Dynamics Simulations

The Journal of Physical Chemistry A ◽

10.1021/jp991985d ◽

2000 ◽

Vol 104 (11) ◽

pp. 2375-2383 ◽

Cited By ~ 13

Author(s):

Nagarajan Vaidehi ◽

William A. Goddard

Keyword(s):

Molecular Dynamics ◽

Phosphoglycerate Kinase ◽

Dynamics Simulations ◽

Structure of phosphorus-selenium glasses: results from ab initio molecular dynamics simulations

Molecular Physics ◽

10.1080/002689700162045 ◽

2000 ◽

Vol 98 (11) ◽

pp. 701-707

Author(s):

Alessandro Sergi, Mauro Ferrario, Francesco Bu

Keyword(s):

Molecular Dynamics ◽

Ab Initio ◽

Ab Initio Molecular Dynamics ◽

Dynamics Simulations

Tracer diffusion in perfectly aligned liquid crystalline phases Kinetic theory and molecular dynamics simulations

Molecular Physics ◽

10.1080/00268979709482789 ◽

1997 ◽

Vol 91 (6) ◽

pp. 993-1003 ◽

Cited By ~ 1

Author(s):

ANJALI KHARE ◽

DAVID KOFKE ◽

GLENN EVANS

Keyword(s):

Molecular Dynamics ◽

Kinetic Theory ◽

Liquid Crystalline ◽

Tracer Diffusion ◽

Crystalline Phases ◽

Liquid Crystalline Phases ◽

Dynamics Simulations

ERRATUM Molecular dynamics simulations of liquid crystal phases using atomistic potentials

Molecular Physics ◽

10.1080/002689798167430 ◽

1998 ◽

Vol 95 (1) ◽

pp. 121-121

Author(s):

CARL MCBRIDE MARK R. WILSON JUDITH A. K.

Keyword(s):

Molecular Dynamics ◽

Liquid Crystal ◽

Crystal Phases ◽

Dynamics Simulations ◽

Liquid Crystal Phases

Nonequilibrium Molecular Dynamics Simulations of 3-Methylhexane: The Effect of Inter- and Intramolecular Potential Models on Simulated Viscosity

The Journal of Physical Chemistry A ◽

10.1021/jp971476g ◽

1997 ◽

Vol 101 (27) ◽

pp. 5026-5026

Author(s):

Maija Lahtela ◽

Tapani A. Pakkanen ◽

Richard L. Rowley

Keyword(s):

Molecular Dynamics ◽

Nonequilibrium Molecular Dynamics ◽

Potential Models ◽

Dynamics Simulations

Assessment of all-atom potentials for modeling membranes: molecular dynamics simulations of solid and liquid alkanes and crystals of phospholipid fragments

Journal de Chimie Physique ◽

10.1051/jcp/1997941482 ◽

1997 ◽

Vol 94 ◽

pp. 1482-1502 ◽

Cited By ~ 27

Author(s):

DJ Tobias ◽

K Tu ◽

ML Klein

Keyword(s):

Molecular Dynamics ◽

Dynamics Simulations ◽

Liquid Alkanes