Alan E. Mark
Alan E. Mark
Professor of Biophysical Chemistry, University of Queensland
Verified email at uq.edu.au - Homepage
TitleCited byYear
GROMACS: fast, flexible, and free
D Van Der Spoel, E Lindahl, B Hess, G Groenhof, AE Mark, ...
Journal of computational chemistry 26 (16), 1701-1718, 2005
90112005
A biomolecular force field based on the free enthalpy of hydration and solvation: the GROMOS force‐field parameter sets 53A5 and 53A6
C Oostenbrink, A Villa, AE Mark, WF Van Gunsteren
Journal of computational chemistry 25 (13), 1656-1676, 2004
28362004
Biomolecular simulation: the GROMOS96 manual and user guide
WF van Gunsteren, SR Billeter, AA Eising, PH Hünenberger, P Krüger, ...
Vdf Hochschulverlag AG an der ETH Zürich, Zürich 86, 1996
24531996
Coarse grained model for semiquantitative lipid simulations
SJ Marrink, AH De Vries, AE Mark
The Journal of Physical Chemistry B 108 (2), 750-760, 2004
18312004
The GROMOS biomolecular simulation program package
WRP Scott, PH Hünenberger, IG Tironi, AE Mark, SR Billeter, J Fennen, ...
The Journal of Physical Chemistry A 103 (19), 3596-3607, 1999
14681999
Peptide folding: when simulation meets experiment
X Daura, K Gademann, B Jaun, D Seebach, WF Van Gunsteren, AE Mark
Angewandte Chemie International Edition 38 (1‐2), 236-240, 1999
12181999
Definition and testing of the GROMOS force-field versions 54A7 and 54B7
N Schmid, AP Eichenberger, A Choutko, S Riniker, M Winger, AE Mark, ...
European biophysics journal 40 (7), 843, 2011
8342011
Avoiding singularities and numerical instabilities in free energy calculations based on molecular simulations
TC Beutler, AE Mark, RC van Schaik, PR Gerber, WF Van Gunsteren
Chemical physics letters 222 (6), 529-539, 1994
8101994
An Automated force field Topology Builder (ATB) and repository: version 1.0
AK Malde, L Zuo, M Breeze, M Stroet, D Poger, PC Nair, C Oostenbrink, ...
Journal of Chemical Theory and Computation 7 (12), 4026–4037, 2011
6552011
Mechanism by which 2, 2, 2-trifluoroethanol/water mixtures stabilize secondary-structure formation in peptides: a molecular dynamics study
D Roccatano, G Colombo, M Fioroni, AE Mark
Proceedings of the National Academy of Sciences 99 (19), 12179-12184, 2002
4632002
Parametrization of aliphatic CHn united atoms of GROMOS96 force field
X Daura, AE Mark, WF Van Gunsteren
Journal of computational chemistry 19 (5), 535-547, 1998
4141998
Reversible peptide folding in solution by molecular dynamics simulation
X Daura, B Jaun, D Seebach, WF Van Gunsteren, AE Mark
Journal of molecular biology 280 (5), 925-932, 1998
4041998
Simulation of pore formation in lipid bilayers by mechanical stress and electric fields
DP Tieleman, H Leontiadou, AE Mark, SJ Marrink
Journal of the American Chemical Society 125 (21), 6382-6383, 2003
4012003
Antimicrobial peptides in action
H Leontiadou, AE Mark, SJ Marrink
Journal of the American Chemical Society 128 (37), 12156-12161, 2006
4002006
Toroidal pores formed by antimicrobial peptides show significant disorder
D Sengupta, H Leontiadou, AE Mark, SJ Marrink
Biochimica et Biophysica Acta (BBA)-Biomembranes 1778 (10), 2308-2317, 2008
3962008
Folding–unfolding thermodynamics of a β‐heptapeptide from equilibrium simulations
X Daura, WF van Gunsteren, AE Mark
Proteins: structure, function, and bioinformatics 34 (3), 269-280, 1999
3841999
Decomposition of the free energy of a system in terms of specific interactions: implications for theoretical and experimental studies
AE Mark, WF van Gunsteren
Journal of molecular biology 240 (2), 167-176, 1994
3401994
Molecular dynamics simulation of the formation, structure, and dynamics of small phospholipid vesicles
SJ Marrink, AE Mark
Journal of the American Chemical Society 125 (49), 15233-15242, 2003
3252003
The mechanism of vesicle fusion as revealed by molecular dynamics simulations
SJ Marrink, AE Mark
Journal of the American Chemical Society 125 (37), 11144-11145, 2003
3182003
Fluctuation and cross-correlation analysis of protein motions observed in nanosecond molecular dynamics simulations
PH Hünenberger, AE Mark, WF Van Gunsteren
Journal of molecular biology 252 (4), 492-503, 1995
3171995
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