you can use
* sed -i '/^.............H/d'* filename
to delete all the hydrogen from a pdb file.
On 15 April 2015 at 12:05, muhammad tahir ayub <tahirgp0.gmail.com> wrote:
> Dear All
> While editing the pdb we need to delete the hydrogens, I have
> used the following commands but all the hydrogens were not deleted
>
> reduce -trim pdbnameH > pdbname
>
>
>
> *awk '$1=="ATOM" && substr($3,1,1)!="H"' input.pdb > output.pdb*
>
>
> *what can i do for the deletion of all Hydrogen atoms from the pdb
> filekindly help me in this regard*
>
>
> *Thanks in advance*
> *Muhammad Tahir*
> *Ayub*
>
> *Junior Research Fellow*
>
> *H.E.J Research Institute of Chemistry*
>
> *International Centre for chemical and Biological Sciences*
>
> *University of Karachi, Pakistan*
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Received on Wed Apr 15 2015 - 02:30:03 PDT
