Hi Yeping -
There is a script on the PyMOL Wiki that will help with this.
http://pymolwiki.org/index.php/Average_b
Save the code in a plain text file as average_b.py in your working directory,
then run it from the PyMOL prompt:
run average_b.py
Then you can analyze any residue you like, for example:
fetch 1shv
average_b (chain A and resi 70)
For a more rigorous analysis, you also may want to look at the CCP4 program
Baverage<http://www.ccp4.ac.uk/html/baverage.html>.
Cheers,
Jared
--
Jared Sampson
Xiangpeng Kong Lab
NYU Langone Medical Center
Medical Science Building, Room 398
550 First Avenue
New York, NY 10016
212-263-7898
http://kong.med.nyu.edu/
On Nov 5, 2013, at 7:49 PM, sunyeping
<sunyep...@aliyun.com<mailto:sunyep...@aliyun.com>> wrote:
Dear pymol users,
Pdb files give B factor of each atom. How can I get B factor of the individual
residues? Thanks.
Yeping Sun
Institute of Microbiology, Chinese Academy of Sciences
------------------------------------------------------------------------------
November Webinars for C, C++, Fortran Developers
Accelerate application performance with scalable programming models. Explore
techniques for threading, error checking, porting, and tuning. Get the most
from the latest Intel processors and coprocessors. See abstracts and register
http://pubads.g.doubleclick.net/gampad/clk?id=60136231&iu=/4140/ostg.clktrk_______________________________________________
PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net)
Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users
Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
------------------------------------------------------------
This email message, including any attachments, is for the sole use of the
intended recipient(s) and may contain information that is proprietary,
confidential, and exempt from disclosure under applicable law. Any unauthorized
review, use, disclosure, or distribution is prohibited. If you have received
this email in error please notify the sender by return email and delete the
original message. Please note, the recipient should check this email and any
attachments for the presence of viruses. The organization accepts no liability
for any damage caused by any virus transmitted by this email.
=================================
------------------------------------------------------------------------------
November Webinars for C, C++, Fortran Developers
Accelerate application performance with scalable programming models. Explore
techniques for threading, error checking, porting, and tuning. Get the most
from the latest Intel processors and coprocessors. See abstracts and register
http://pubads.g.doubleclick.net/gampad/clk?id=60136231&iu=/4140/ostg.clktrk
_______________________________________________
PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net)
Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users
Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
