Published April 22, 2022
| Version v1
Dataset
Open
MD simulation of the crystal unit cell of the second PDZ domain of LNX2 protein
Description
This molecular dynamics simulation data is provided as part of the manuscript "LAWS: Local Alignment for Water Sites - a method to analyze crystallographic water in simulations". The code for the algorithm is provided: on github
The system contains one unit cell of the crystal (PDB ID: 5E11) with 4 symmetrically related protein chains. The total simulation length is 1 microsecond.
Force field + water model: CHARMM36m + CHARMM-modified TIP3P
Number of atoms: 9650
Number of time frames: 100,000 with 10-ps stride
The details of the simulations are provided in the manuscript.