[gmx-users] DNA based protein error

Justin Lemkul jalemkul at vt.edu
Fri Sep 8 13:46:37 CEST 2017

On 9/8/17 7:27 AM, Anjali Patel wrote:
> Hello to all,
> I am doing MD simulation of DNA based protein-protein complex. but getting
> error is"Residue 'DT' not found in residue topology database" can anyone
> help to fix this. I should change forcefield (ff)? if yes then please
> suggest appropriate ff. or there is something else to change in pdb file.

What is DT and what does your force field expect it to be named? You 
should choose your force field based on which one is best suited to the 
problem at hand, not the one that happens to work the first time you get 
it to go through pdb2gmx :)



Justin A. Lemkul, Ph.D.
Assistant Professor
Virginia Tech Department of Biochemistry

303 Engel Hall
340 West Campus Dr.
Blacksburg, VA 24061

jalemkul at vt.edu | (540) 231-3129


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