README file for the work
Rodrigo Galindo-Murillo, Thomas E Cheatham, III, 
Ethidium bromide interactions with DNA: an exploration 
of a classic DNA–ligand complex with unbiased molecular dynamics simulations, 
Nucleic Acids Research, 2021;, gkab143, https://doi.org/10.1093/nar/gkab143

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DDD files:
trajectory files of ethidium with the Drew-Dickerson dodeckamer

AMBER topology file: nowater.topo 

Three independent replicas:
ddd01-nowater.nc
ddd02-nowater.nc
ddd03-nowater.nc

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GAAC files:
trajectory files of ethidium with the sequence:
d(GCACGAACGAACGAACGC)

AMBER topology file: nowater.topo


Twenty independent replicas with the name:
gaacXX-nowater.nc


At the top level are trajectories processed via CPPTRAJ to remove
solvent, autoimaged and RMS fitted.  CPPTRAJ is part of AmberTools and is
available at http://www.ambermd.org.