Clark
Sent: 14 August 2022 16:01
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] circular peptide structure refinement
Phenix in the past, and I’m assuming still, does not recognize “link records”.
You’ll likely need to generate the peptide in AceDRG, making sure to link the
carboxy- and amino
Phenix in the past, and I’m assuming still, does not recognize “link
records”. You’ll likely need to generate the peptide in AceDRG, making sure
to link the carboxy- and amino-termini, and include the cif during
refinement.
This was the only way I was able to get Phenix to properly refine an
Hi Joel,
Thank you for your reply. I just got time to refine the circular
peptide structure 1 month later. I use MR to solve the structure. I made
the link(Calculate-->Modeling-->Make Link) as the guy who replied to my
question suggested. The link generated is a dashed line but disappeared
You will need to add the "link" line to the PDB file so the software recognises
the covalent bond.
See the pdb file for 6U6K
Hope this helps
J
From: CCP4 bulletin board On Behalf Of Jiang Xu
Sent: Thursday, 7 July 2022 10:15 AM
To: CCP4BB@JISCMAIL.AC.UK
Subject: [ccp4bb] circular peptide
