Re: [ccp4bb] circular peptide structure refinement

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

Re: [ccp4bb] circular peptide structure refinement

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 2

Re: [ccp4bb] circular peptide structure refinement

d. > > > 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

Re: [ccp4bb] circular peptide structure refinement

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] circul

[ccp4bb] circular peptide structure refinement

Hello everyone, I have a peptide that forms a peptide bond between the N terminal and C terminal. I used X-ray crystallography to solve the structure and found the N and C terminals are pretty close to each other with extra electron densities clearly showing that they form a peptide bond.