Published 2022 | Version v3

MD simulation of POPC bilayer with OPLS3e force field, 500 mM NaCl part 1

Authors/Creators

Description

MD simulation of POPC (1-palmitoyl-2-oleoyl-phosphatidylcholine) bilayer with OPLS3e force field, 500 mM NaCl part 1 (0-500ns)

Dataset contains trajectories (_trj) for the first 500ns of the 1000ns trajectory, topology (-out.cms), input files (.cfg, .msj, .cms), and other files

For the ease of the upload, trajectory files (_trj) are divided to 100ns pieces and tarred (named desmond_md_nacl500_x-xns.tar.gz)

Dataset also contains Gromacs converted files (.xtc, .gro and .top) 

System: POPC bilayer in water

Number of lipids: 200 (100/leaflet)

Number of waters: 8880

Salt: NaCl

Concentration: 500 mM

Number of cations: 80

Simulation time: 1000 ns (in this dataset 0-500ns of original trajectories)

Simulation engine: Desmond 2019-4

Temperature: 300 K

Related dataset: MD simulation of POPC bilayer with OPLS3e force field, 500 mM NaCl part 2

In contrast to previous version, this version contains gromacs format trajectory file .xtc with corrected time steps.

Files

Files (47.8 GB)

Name Size
md5:80b0ab435accc3e520a451b7a52b9359
1.3 MB Download
md5:664e81edb7d3169ea7a462cfadb9d8e2
15.4 MB Download
md5:fdf1ad437de6ada0da5f3f13ad6d7f55
127.2 kB Download
md5:7941009d49a18bd39f853b55e9cbddc0
1.2 kB Download
md5:acfd5764746da845d2319d62526fba2f
14.7 MB Download
md5:1404a5822c5ea86565b1fa791b0f8c8d
68.3 MB Download
md5:ab5ad6984346b6174beafc422811087f
5.1 kB Download
md5:822fd46f912e8d4f2b28b3ce03cce0bd
5.9 GB Download
md5:804859bd367e27e238c574190cea87a9
5.9 GB Download
md5:090daa4e2a98657575e793574d51becf
5.9 GB Download
md5:107945229286db9d5ab0ddeae5ac849f
5.9 GB Download
md5:b4b469bb895c3ce5687b134fb033b07e
15.6 MB Download
md5:41b64ef707b33b6e677002c2e7b4f93d
5.9 GB Download
md5:a5848a2545c4a6dc1968dfc7b1b0e387
3.7 MB Download
md5:d3e70ee34788a01c355af4597612c158
3.7 MB Download
md5:fb28107006f304802b9d08367fa91194
18.0 GB Download

Additional details

Related works

Compiles
Preprint: 10.26434/chemrxiv-2022-m89bg (DOI)
Is published in
Publication: 10.1021/acs.jcim.2c00395 (DOI)

Dates

Available
2022