Published April 27, 2023 | Version v1

OpenMM simulations of POPE using the CHARMM Drude2023 force field

Authors/Creators

  • 1. U.S. NIH, NHLBI Lab. of Membrane Biophysics

Description


The dataset contains a PSF, a formatted coordinate file (CRD), and DCD files with the final 200 ns from
each of 3 replicate simulations from the paper


Drude Polarizable Lipid Force Field with Explicit Treatment of LongRange Dispersion:
Parametrization and Validation for Saturated and Monounsaturated Zwitterionic Lipids

Yalun Yu, Richard M. Venable, Jonathan Thirman, Payal Chatterjee, Anmol Kumar, Richard W. Pastor,*
Benoît Roux,* Alexander D. MacKerell, Jr.,* and Jeffery B. Klauda*
https://doi.org/10.1021/acs.jctc.3c00203


DCD file names indicate the lipid, replica number, and the time point of the final coordinate set in the file; each file has frames spaced at 10 ps over a 50 ns interval.

Notes

The data files contain additional atom types for the Drude particles and oxygen lone pairs

Files

Files (17.7 GB)

Name Size
md5:78b71fed54d4ee00ae68b68b9092d451
1.5 GB Download
md5:94584fecf8ead31c9123627c1bd1f20c
1.5 GB Download
md5:087a171704c868ad4900bdb162f98622
1.5 GB Download
md5:7ebbd5062b9577a575bd4dc1dc0a712f
1.5 GB Download
md5:e9e0ea16c6726ecedf951ff145f5c6d7
1.5 GB Download
md5:85ad2aa4973cec0f0d90a7376232dd70
1.5 GB Download
md5:7b0ed2f8fb637257baf573957cc9a6be
1.5 GB Download
md5:0511701c25c9140fa9dda7f082e889cd
1.5 GB Download
md5:37dd153414e43c63896cd697ea9bb2a8
1.5 GB Download
md5:6f450875aa4e955d3e1deb401c419d55
1.5 GB Download
md5:ec5446d8ff6970da09c329a1e9c8db97
1.5 GB Download
md5:dec4cd8503ed9aa56293c449f65776a6
3.5 MB Download
md5:e95d62c7e36144f979c45111aa3bb343
1.5 GB Download
md5:517e6e61475a6abf3e2c620dd2a8a07d
6.0 MB Download

Additional details

Related works

Cites
Journal article: 10.1021/acs.jctc.3c00203 (DOI)