Hello Abhik In coot use: Calculate>Merge Molecules to append one structure to another. Coot will change the chain labels for you, which might work out OK in this case.
Alternatively, I've done a lot of this in my time: Make a copy of the reference PDB file Open it in a simple text edit (emacs, vi etc) Go to the end, remove the PDB 'END' statement (Many programs stop reading a PDB file when they see an END) Append the second, superimposed file. For most chain labels you can also change them in a text editor but 'C' 'O' and 'N' will cause you trouble. You can do it easily in Coot. This would take no more than 15 seconds in emacs. >From the command line: grep -v 'END' reference.pdb > reference2.pdb egrep '^ATOM|^HETATM' superimposed.pdb >> reference2.pdb (text editor to change chain labels, if you care, but there are ways to do that from the command line too) Cheers Phil Jeffrey Princeton ________________________________ From: CCP4 bulletin board <[email protected]> on behalf of Abhik Mukhopadhyay <[email protected]> Sent: Monday, September 14, 2020 4:55 PM To: [email protected] <[email protected]> Subject: [ccp4bb] How to save two superposed protein structures in PDB format Hi, How can I save two superposed protein structures in PDB format? Is there any way I can do this in coot or pymol? There is only one chain in those two PDB structures. Thanks in advance, Abhik ________________________________ To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 ######################################################################## To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/
