Themis Lazaridis to Molecular Dynamics Simulation
This is a "connection" page, showing publications Themis Lazaridis has written about Molecular Dynamics Simulation.
Connection Strength
7.014
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Pino-Angeles A, Lazaridis T. Effects of Peptide Charge, Orientation, and Concentration on Melittin Transmembrane Pores. Biophys J. 2018 06 19; 114(12):2865-2874.
Score: 0.580
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Lazaridis T, Hummer G. Classical Molecular Dynamics with Mobile Protons. J Chem Inf Model. 2017 11 27; 57(11):2833-2845.
Score: 0.557
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Lipkin R, Lazaridis T. Computational prediction of the optimal oligomeric state for membrane-inserted ?-barrels of protegrin-1 and related mutants. J Pept Sci. 2017 Apr; 23(4):334-345.
Score: 0.533
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Versace RE, Lazaridis T. Modeling Protein-Micelle Systems in Implicit Water. J Phys Chem B. 2015 Jun 25; 119(25):8037-47.
Score: 0.471
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Brice AR, Lazaridis T. Structure and dynamics of a fusion peptide helical hairpin on the membrane surface: comparison of molecular simulations and NMR. J Phys Chem B. 2014 May 01; 118(17):4461-70.
Score: 0.435
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Prieto L, He Y, Lazaridis T. Protein arcs may form stable pores in lipid membranes. Biophys J. 2014 Jan 07; 106(1):154-61.
Score: 0.426
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Rahaman A, Lazaridis T. A thermodynamic approach to alamethicin pore formation. Biochim Biophys Acta. 2014 Jan; 1838(1 Pt B):98-105.
Score: 0.418
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Lazaridis T, He Y, Prieto L. Membrane interactions and pore formation by the antimicrobial peptide protegrin. Biophys J. 2013 Feb 05; 104(3):633-42.
Score: 0.400
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Zhan H, Lazaridis T. Inclusion of lateral pressure/curvature stress effects in implicit membrane models. Biophys J. 2013 Feb 05; 104(3):643-54.
Score: 0.400
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Ramos J, Lazaridis T. Computational analysis of residue contributions to coiled-coil topology. Protein Sci. 2011 Nov; 20(11):1845-55.
Score: 0.364
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Prieto L, Lazaridis T. Computational studies of colicin insertion into membranes: the closed state. Proteins. 2011 Jan; 79(1):126-41.
Score: 0.341
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Dutta A, Sepehri A, Lazaridis T. Putative Pore Structures of Amyloid ? 25-35 in Lipid Bilayers. Biochemistry. 2023 09 05; 62(17):2549-2558.
Score: 0.207
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Sepehri A, Lazaridis T. Putative Structures of Membrane-Embedded Amyloid ? Oligomers. ACS Chem Neurosci. 2023 01 04; 14(1):99-110.
Score: 0.198
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Lazaridis T. Molecular origins of asymmetric proton conduction in the influenza M2 channel. Biophys J. 2023 01 03; 122(1):90-98.
Score: 0.197
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Dixit M, Lazaridis T. Free energy of hydrophilic and hydrophobic pores in lipid bilayers by free energy perturbation of a restraint. J Chem Phys. 2020 Aug 07; 153(5):054101.
Score: 0.168
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Nepal B, Sepehri A, Lazaridis T. Mechanisms of negative membrane curvature sensing and generation by ESCRT III subunit Snf7. Protein Sci. 2020 06; 29(6):1473-1485.
Score: 0.164
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Lipkin R, Lazaridis T. Computational studies of peptide-induced membrane pore formation. Philos Trans R Soc Lond B Biol Sci. 2017 Aug 05; 372(1726).
Score: 0.137
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Pino-Angeles A, Leveritt JM, Lazaridis T. Pore Structure and Synergy in Antimicrobial Peptides of the Magainin Family. PLoS Comput Biol. 2016 Jan; 12(1):e1004570.
Score: 0.122
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Lipkin RB, Lazaridis T. Implicit Membrane Investigation of the Stability of Antimicrobial Peptide ?-Barrels and Arcs. J Membr Biol. 2015 Jun; 248(3):469-86.
Score: 0.113
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Rahaman A, Lazaridis T. A thermodynamic approach to alamethicin pore formation. Biochim Biophys Acta. 2014 May; 1838(5):1439-47.
Score: 0.109
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Lazaridis T, Leveritt JM, PeBenito L. Implicit membrane treatment of buried charged groups: application to peptide translocation across lipid bilayers. Biochim Biophys Acta. 2014 Sep; 1838(9):2149-59.
Score: 0.107
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He Y, Lazaridis T. Activity determinants of helical antimicrobial peptides: a large-scale computational study. PLoS One. 2013; 8(6):e66440.
Score: 0.102
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Li Z, Lazaridis T. Computing the thermodynamic contributions of interfacial water. Methods Mol Biol. 2012; 819:393-404.
Score: 0.093
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Yuzlenko O, Lazaridis T. Interactions between ionizable amino acid side chains at a lipid bilayer-water interface. J Phys Chem B. 2011 Nov 24; 115(46):13674-84.
Score: 0.092
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Zhan H, Lazaridis T. Influence of the membrane dipole potential on peptide binding to lipid bilayers. Biophys Chem. 2012 Feb; 161:1-7.
Score: 0.092
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Mihajlovic M, Lazaridis T. Antimicrobial peptides in toroidal and cylindrical pores. Biochim Biophys Acta. 2010 Aug; 1798(8):1485-93.
Score: 0.082
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Mihajlovic M, Lazaridis T. Antimicrobial peptides bind more strongly to membrane pores. Biochim Biophys Acta. 2010 Aug; 1798(8):1494-502.
Score: 0.082
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Madeo J, Mihajlovic M, Lazaridis T, Gunner MR. Slow dissociation of a charged ligand: analysis of the primary quinone Q(A) site of photosynthetic bacterial reaction centers. J Am Chem Soc. 2011 Nov 02; 133(43):17375-85.
Score: 0.023