You could replace the OXT with a hydrogen, note O-H bond length is about 1 Angstrom, a la neutron style refinement. Phenix has this sort of thing inbuilt, I think.
Sent from ProtonMail mobile -------- Original Message -------- On 23 Sep 2021, 10:06, Schreuder, Herman /DE wrote: > Dear Rohit, > > Do you mean that the residues after your “C-terminus” have been deleted > because there is no convincing electron density for them? > > In that case, a charged carboxylate at the N-terminus is incorrect and you > should delete the OXT atom. Alternatively, you could add one residue at the > C-terminus and delete all atoms except the N. however, you may still have to > manually delete the OXT atom. > > Best, > > Herman > > Von: CCP4 bulletin board <CCP4BB@JISCMAIL.AC.UK> Im Auftrag von rohit kumar > Gesendet: Mittwoch, 22. September 2021 23:29 > An: CCP4BB@JISCMAIL.AC.UK > Betreff: [ccp4bb] Protein's C-terminal neutral > > Hello Everyone, > > Is there any way that I could make my protein's C-terminal neutral using Coot? > > Actually, I have a protein-peptide complex structure and my peptide is bound > at the C-terminal end. While making a surface charge diagram it is negatively > charged (because of the CO group at the end, which is not the end residue of > my purified protein) and I want to make it neutral (possibly a peptide bond > in solution). > > Please let me know if I am clear enough with my question. > > Thank you > > -- > > Regards > Dr. Rohit Kumar Singh > > Postdoctoral fellow > > Aurora CO USA > > --------------------------------------------------------------- > > 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 ######################################################################## 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/
