Hi,
Centering/imaging followed by an RMS fit is definitely the way to go.
On Mon, Jan 23, 2012 at 9:05 AM, Simon Becker
<simon.becker.uni-konstanz.de> wrote:
> side of the other one. So far my experiments with the center and image
> keywords were unsuccessful.
Imaging with multiple molecules can definitely be challenging. A
general strategy that works for me is to do one round of
imaging/centering for each molecule I have, each time adding one more
molecule to the mask. For example, for 2-stranded DNA where each
strand is considered a separate molecule I use:
# Strand 1
center :1-30 origin mass
image center origin
# Strand 1 + Strand 2
center :1-60 origin mass
image center origin
If you post some more details about your system (# of molecules etc)
along with the commands you have already tried, we may be able to give
you more detailed advice.
-Dan
>
> Regards,
> Simon
>
> --
> Simon Becker
> Dept. of Biology
> Molecular Bioinformatics
> Box M647 Universitaet Konstanz
> D-78457 Konstanz
> mail: simon.becker.uni-konstanz.de
> Tel: 0049 7531 882900, Fax: 3183
>
> http://strucbio.biologie.uni-konstanz.de/
>
>
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--
-------------------------
Daniel R. Roe, PhD
Postdoctoral Associate
BioMaPS Institute, Rutgers University
610 Taylor Road
Piscataway, NJ 08854
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Received on Mon Jan 23 2012 - 08:30:02 PST
