make an index file entry with the stuff you want to write in your pdb, and use editconf -n to dump only that.

On Sep 25, 2006, at 5:05 PM, Guillem Portella wrote:


man grep

with special attention to -v option

bounus ball: it also works before em and md

Cheers


On Monday 25 September 2006 15:55, jahanshah ashkani wrote:
Hi,
How can I remove water and ion molecules from the pdb file after energy
minimization and molecular dynamic simulation? Thank you very much.

Sincerely yours,


Jahanshah Ashkani,
PhD student of Biotechnology & Genetics,
University of the Western Cape,
Biotechnology Department,
Private Bag X17,
7735 Bellville,
Cape Town,
South Africa
[EMAIL PROTECTED]

---------------------------------
Do you Yahoo!?
 Everyone is raving about the  all-new Yahoo! Mail.

-- ***************************************************************
 Guillem Portella
 Computational biomolecular dynamics group at the
 Max Planck Institute for Biophysical Chemistry
 Am Fassberg 11
 D-37077 Goettingen -- Germany --
 phone: ++49-551-2012309
 fax: ++49-551-2012302
 Email: [EMAIL PROTECTED]
webpage:http://www.mpibpc.mpg.de/groups/grubmueller/start/people/ gportel/index.php
***************************************************************
_______________________________________________
gmx-users mailing list    gmx-users@gromacs.org
http://www.gromacs.org/mailman/listinfo/gmx-users
Please don't post (un)subscribe requests to the list. Use the
www interface or send it to [EMAIL PROTECTED]
Can't post? Read http://www.gromacs.org/mailing_lists/users.php

Note, from 2005 on my email adress has changed to [EMAIL PROTECTED]

_______________________________________________
gmx-users mailing list    gmx-users@gromacs.org
http://www.gromacs.org/mailman/listinfo/gmx-users
Please don't post (un)subscribe requests to the list. Use the www interface or send it to [EMAIL PROTECTED]
Can't post? Read http://www.gromacs.org/mailing_lists/users.php

Reply via email to