DOI: 10.22002/v5tec-g6p43
title: GTP-in-Microtubule  DFT Electron Density

description: DFT electron density computed on molecular-dynamics-sampled geometries of GTP hydrolysis in microtubule proteins.
 
Data generated using the Gaussian Plane Waves DFT at the PBE/TZV2P/400Ry level by PySCF.
 
Each tar corresponds to one metadynamics run of GTP hydrolysis mediated by microtubule proteins. In each tar, each inter*.restart folder is one geometry sampled from MD, and in each folder,
rho_22.npy: DFT density in a.u.
grid_sizes_22.dat: shape of the density
energy_22.dat: DFT ground state energy in a.u.
box.dat: box size in angstrom
centered.xyz: geometry placed at the center of the box
 
Example of reading the density in Python:
import numpy as np
rho = np.load("rho_22.npy")
rho = rho.reshape(*np.loadtxt("grid_sizes_22.dat", dtype=int))
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