[gmx-users] Dangling bond error for dna

Justin A. Lemkul jalemkul at vt.edu
Sun Apr 10 04:18:30 CEST 2011

majid hasan wrote:
> Dear All,
> I created .pdb file for dna using gabedit. But when I try to create the 
> topology file I get this error: Fatal error:
> There is a dangling bond at at least one of the terminal ends and the 
> force field does not provide terminal entries or files. Edit a .n.tdb 
> and/or .c.tdb file.
> Output of pdb2gmx, and my input pdb files are attached. Could anyone 
> please suggest why this is happening?

Nothing is attached.


> Thanks,
> Majid


Justin A. Lemkul
Ph.D. Candidate
ICTAS Doctoral Scholar
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080


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