[gmx-users] Error- Atom not found in residue seq nr while adding atom

Javier Cerezo jcb1 at um.es
Wed Apr 18 12:14:50 CEST 2012

Your PDB structure have probably some missing atoms. Check if this is 
the case for residue nr. 7.

To solve it you can use an external tool to process your PDB file adding 
the missing atoms. I've used SwissPDB and worked fine.


El 18/04/12 11:24, aiswarya pawar escribió:
> Hi Users,
> I did the following step=
>  pdb2gmx -ignh -f 1ahw.pdb -o sample.pdb -p sample.top
> and received an error= Atom ND1 not found in residue seq.nr 
> <http://seq.nr>. 7 while adding atom.
> I dont understand how do i rectify this.
> -- 
> Aiswarya

PhD Student
Physical Chemistry
Universidad de Murcia
Murcia (Spain)
Tel: (+34)868887434
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