Configurations and parameters for DMPC and DMTAP lipids and their mixtures
DOI10.5281/zenodo.2595283Zenodo2595283MaRDI QIDQ6697810
Dataset published at Zenodo repository.
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Publication date: 15 March 2019
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Configurations containing cationic (charge: +1) DMTAP and DMPC lipids, water and neutralizing ions (when necessary) at 50 C for the following systems: Pure DMPC: 128 lipids (all DMPC, 0 Cl ions) and 3655 waters. File: dmpc128_20ns.pdb 6% DMTAP: 128 lipids (120 DMPC, 8 DMTAP, 8 Cl ions) and 3647 waters. File: tap06_20ns.pdb 16% DMTAP: 128 lipids (108 DMPC, 20 DMTAP, 20 Cl ions) and 3635 waters 25% DMTAP: 128 lipids (96 DMPC, 32 DMTAP, 32 Cl ions) and 3623 waters 31% DMTAP: 128 lipids (88 DMPC, 40 DMTAP, 40 Cl ions) and 3615 waters 39% DMTAP: 128 lipids (78 DMPC, 50 DMTAP, 50 Cl ions) and 3605 waters 50% DMTAP: 128 lipids (64 DMPC, 64 DMTAP, 64 Cl ions) and 3591 waters 63% DMTAP: 128 lipids (48 DMPC, 80 DMTAP, 80 Cl ions) and 3575 waters 75% DMTAP: 128 lipids (32 DMPC, 96 DMTAP, 96 Cl ions) and 3559 waters 89% DMTAP: 128 lipids (14 DMPC, 114 DMTAP, 114 Cl ions) and 3541 waters Pure DMTAP: 128 lipids (all DMTAP, 128 Cl ions) and 3527 waters: File: dmtap128_24ns.pdb Simulation time for each system is shown in the file name. Parameter files are: dmpc.itp and dmtap.itp. The file lipid.itp is also needed (these are Berger lipids). Download lipid.itp from http://wcm.ucalgary.ca/tieleman/downloads The PDF file (TablePDB.pdf ) contains a summary of the systems with area per lipid and error. References: Cationic DMPC/DMTAP Lipid Bilayers: Molecular Dynamics Study, Gurtovenko, Patra, Karttunen, Vattulainen, Biophys. J. 86, 3461-3472 (2004). Effect of Monovalent Salt on Cationic Lipid Membranes As Revealed by Molecular Dynamics Simulations, A. A. Gurtovenko, M. Miettinen, M. Karttunen, and I. Vattulainen J. Phys. Chem. B 109, 21126-21134 (2005). Ion Dynamics in Cationic Lipid Bilayer Systems in Saline Solutions, M.S. Miettinen, A.A. Gurtovenko, I. Vattulainen, and M. Karttunen, J. Phys. Chem. B 113, 9226-9234 (2009).
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