Homology modeling and molecular dynamics simulations of the glycine receptor ligand binding domain

Kirill Speranskiy; Michael Cascio; Maria Kurnikova

doi:10.1002/prot.21251

Homology modeling and molecular dynamics simulations of the glycine receptor ligand binding domain

Proteins Structure Function and Bioinformatics ◽

10.1002/prot.21251 ◽

2007 ◽

Vol 67 (4) ◽

pp. 950-960 ◽

Cited By ~ 19

Author(s):

Kirill Speranskiy ◽

Michael Cascio ◽

Maria Kurnikova

Keyword(s):

Molecular Dynamics ◽

Ligand Binding ◽

Homology Modeling ◽

Molecular Dynamics Simulations ◽

Glycine Receptor ◽

Binding Domain ◽

Ligand Binding Domain ◽

Receptor Ligand ◽

Dynamics Simulations

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Homology Modeling Using Multiple Molecular Dynamics Simulations and Docking Studies of the Human Androgen Receptor Ligand Binding Domain Bound to Testosterone and Nonsteroidal Ligands†

Journal of Medicinal Chemistry ◽

10.1021/jm0005353 ◽

2001 ◽

Vol 44 (11) ◽

pp. 1729-1740 ◽

Cited By ~ 59

Author(s):

Craig A. Marhefka ◽

Bob M. Moore ◽

Thomas C. Bishop ◽

Leonid Kirkovsky ◽

Arnab Mukherjee ◽

...

Keyword(s):

Molecular Dynamics ◽

Androgen Receptor ◽

Ligand Binding ◽

Homology Modeling ◽

Molecular Dynamics Simulations ◽

Docking Studies ◽

Binding Domain ◽

Receptor Ligand ◽

Dynamics Simulations ◽

Human Androgen Receptor

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Molecular dynamics simulations and molecular flooding studies of the retinoid X-receptor ligand binding domain

Journal of Molecular Modeling ◽

10.1007/s00894-017-3260-9 ◽

2017 ◽

Vol 23 (3) ◽

Cited By ~ 3

Author(s):

Geoffrey M. Gray ◽

Ning Ma ◽

Carl E. Wagner ◽

Arjan van der Vaart

Keyword(s):

Molecular Dynamics ◽

Ligand Binding ◽

Molecular Dynamics Simulations ◽

Binding Domain ◽

Ligand Binding Domain ◽

Retinoid X Receptor ◽

Receptor Ligand ◽

Dynamics Simulations

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Molecular dynamics simulations of the human CAR ligand-binding domain: deciphering the molecular basis for constitutive activity

Journal of Molecular Modeling ◽

10.1007/s00894-004-0227-4 ◽

2004 ◽

Vol 11 (1) ◽

pp. 69-79 ◽

Cited By ~ 18

Author(s):

Björn Windshügel ◽

Johanna Jyrkkärinne ◽

Antti Poso ◽

Paavo Honkakoski ◽

Wolfgang Sippl

Keyword(s):

Molecular Dynamics ◽

Ligand Binding ◽

Molecular Dynamics Simulations ◽

Molecular Basis ◽

Binding Domain ◽

Ligand Binding Domain ◽

Constitutive Activity ◽

Dynamics Simulations

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Molecular Dynamics Simulations of the Ligand-Binding Domain of the Ionotropic Glutamate Receptor GluR2

Biophysical Journal ◽

10.1016/s0006-3495(02)75430-1 ◽

2002 ◽

Vol 82 (2) ◽

pp. 676-683 ◽

Cited By ~ 62

Author(s):

Yalini Arinaminpathy ◽

Mark S.P. Sansom ◽

Philip C. Biggin

Keyword(s):

Molecular Dynamics ◽

Ligand Binding ◽

Molecular Dynamics Simulations ◽

Glutamate Receptor ◽

Binding Domain ◽

Ligand Binding Domain ◽

Ionotropic Glutamate Receptor ◽

Dynamics Simulations

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Molecular Dynamics Simulations of the Ligand-binding Domain of anN-Methyl-d-aspartate Receptor

Journal of Biological Chemistry ◽

10.1074/jbc.m512728200 ◽

2006 ◽

Vol 281 (18) ◽

pp. 12736-12742 ◽

Cited By ~ 25

Author(s):

Samantha L. Kaye ◽

Mark S. P. Sansom ◽

Philip C. Biggin

Keyword(s):

Molecular Dynamics ◽

Ligand Binding ◽

Molecular Dynamics Simulations ◽

Binding Domain ◽

Ligand Binding Domain ◽

Aspartate Receptor ◽

Dynamics Simulations

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Faculty Opinions recommendation of Molecular dynamics simulations of the ligand-binding domain of an N-methyl-D-aspartate receptor.

Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature ◽

10.3410/f.1031464.363756 ◽

2006 ◽

Author(s):

D Peter Tieleman

Keyword(s):

Molecular Dynamics ◽

Ligand Binding ◽

Molecular Dynamics Simulations ◽

Binding Domain ◽

Ligand Binding Domain ◽

Aspartate Receptor ◽

Dynamics Simulations

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3C1024 Molecular dynamics simulations for glutamate-binding and cleft-closing processes of the ligand-binding domain of GluR2(3C Protein: Funcrion 2,The 49th Annual Meeting of the Biophysical Society of Japan)

Seibutsu Butsuri ◽

10.2142/biophys.51.s113_3 ◽

2011 ◽

Vol 51 (supplement) ◽

pp. S113

Author(s):

Okimasa Okada ◽

Kei Odai ◽

Tohru Sugimoto ◽

Etsuro Ito

Keyword(s):

Molecular Dynamics ◽

Ligand Binding ◽

Molecular Dynamics Simulations ◽

Annual Meeting ◽

Binding Domain ◽

Ligand Binding Domain ◽

Glutamate Binding ◽

Biophysical Society ◽

Dynamics Simulations

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Molecular dynamics simulations for glutamate-binding and cleft-closing processes of the ligand-binding domain of GluR2

Biophysical Chemistry ◽

10.1016/j.bpc.2011.12.004 ◽

2012 ◽

Vol 162 ◽

pp. 35-44 ◽

Cited By ~ 9

Author(s):

Okimasa Okada ◽

Kei Odai ◽

Tohru Sugimoto ◽

Etsuro Ito

Keyword(s):

Molecular Dynamics ◽

Ligand Binding ◽

Molecular Dynamics Simulations ◽

Binding Domain ◽

Ligand Binding Domain ◽

Glutamate Binding ◽

Dynamics Simulations

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Ligand-escape pathways from the ligand-binding domain of PPARγ receptor as probed by molecular dynamics simulations

European Biophysics Journal ◽

10.1007/s00249-007-0220-9 ◽

2007 ◽

Vol 37 (4) ◽

pp. 369-379 ◽

Cited By ~ 32

Author(s):

D. Genest ◽

N. Garnier ◽

A. Arrault ◽

C. Marot ◽

L. Morin-Allory ◽

...

Keyword(s):

Molecular Dynamics ◽

Ligand Binding ◽

Molecular Dynamics Simulations ◽

Binding Domain ◽

Ligand Binding Domain ◽

Dynamics Simulations

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Molecular dynamics simulations of the conformational changes of the glutamate receptor ligand-binding core in the presence of glutamate and kainate

Proteins Structure Function and Bioinformatics ◽

10.1002/prot.1111 ◽

2001 ◽

Vol 44 (4) ◽

pp. 460-469 ◽

Cited By ~ 28

Author(s):

Jesús Mendieta ◽

Galo Ramírez ◽

Federico Gago

Keyword(s):

Molecular Dynamics ◽

Ligand Binding ◽

Molecular Dynamics Simulations ◽

Glutamate Receptor ◽

Conformational Changes ◽

Receptor Ligand ◽

Binding Core ◽

Dynamics Simulations

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