Re: DCD to PDB conversion

From: Jindal Shah (jindal.shah_at_gmail.com)
Date: Tue Jun 13 2006 - 14:15:47 CDT

Hi,

If you are converting dcd into pdb on a remote machine (as I do). You can
run following script to write out pdb files frame by frame.

mol load psf *.psf dcd *.dcd
set nf [molinfo top get numframes]
for {set i 0 } {$i < $nf} {incr i} {
[atomselect top all frame $i] writepdb frame_$i.pdb
}

Jindal

On 6/8/06, Aye zlem Sezerman <asezerman_at_su.sabanciuniv.edu> wrote:
>
> Hi Miro,
>
> Yes,it is possible to convert DCD file to pdb ..
> Load your psf file to VMD , then load the dcd trajectory file on to it
> (without opening molecule file browser)
> After loading click on the molecule in the VMD main window and from
> file menu select "save coordinates"
>
> there you can choose the type of file you want to create..
>
> Good Luck!
> Ozlem
>
> Edelmiro Moman wrote:
>
> > Hi,
> >
> > Is it possible to convert a DCD trajectory file to a PDB file or a
> > collection/database of PDB files that can be analyzed in any
> application?
> >
> > Cheers,
> >
> > Miro
> >
>

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