[3dem] map and pdb are off aligned in coot.

Xinghong Dai bestdz at gmail.com
Sat Nov 28 17:35:39 PST 2015

Dear Zhongjun,
You can try this to fix your problem: simply copy your .mrc file into .ccp4 file, open the .ccp4 map and your pdb in Chimera, re-fit the pdb into the map, and save the pdb relative to the map. Then the .ccp4 map and the pdb should be well aligned in Coot. 
Good luck!

Best regards, 

Xinghong Dai
Postdoctoral Scholar
Department of Molecular and Medical Pharmacology, UCLA
+1 310 447 4330

From: Zhongjun Hu
Sent: Saturday, November 28, 2015 5:21 PM
To: 3dem at ncmir.ucsd.edu
Subject: [3dem] map and pdb are off aligned in coot.

Hi, everyone:
I meet a very strange problem that my pdb file and mrc file are well aligned in Chimera, but off aligned in Coot.   This is very strange to me, because two month ago, it did not have this problem. Now I cannot fix it. Could you please give me some idea? Thanks.

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