My first guess, without knowing how you used g_rms, is that the larde
rmsd for certain subunits is due to inadequate roto-translational fit
prior to rmsd-calculation. Does that help? If not, please be more
explicit about what you aim to do and what you have done.
/Erik
27 sep 2007 kl. 11.29 skrev TANG JIAOWEI:
Dear all,
I am studying on a big protein with 16 subunits and when i used
g_rmsd to one subunit of the protein, the result seems strange that
the structure of the subunit changes much but it should not.. I
searched the mailing list and it may be caused by the periodic
thing. Could you tell me how to remove the periodic thing in detail
before i use g_rmsd.
Thank you
Tang jiaowei
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_______________________________________________
Erik Marklund, PhD student
Laboratory of Molecular Biophysics,
Dept. of Cell and Molecular Biology, Uppsala University.
Husargatan 3, Box 596, 75124 Uppsala, Sweden
phone: +46 18 471 4537 fax: +46 18 511 755
[EMAIL PROTECTED] http://xray.bmc.uu.se/molbiophys
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