If there is a covalent link, maybe sending a sample off to mass spec would be a good idea. That would remove some of the guesswork.
Dale Tronrud On 7/20/2020 9:16 AM, samer halabi wrote: > Hello all, > I have few blobs in an MHC II structure I am working on, especially > opposite to Histidine as in the accompanying screenshot, that I am > confused about. > > In the crystal conditions, I have Tris, Imidazole, Acetate, PEG and > Glycerol. > Whatever ligand I am fitting in I am getting a clash (overlap -1.029), > which makes me think whether there is a covalent bond forming between > Histidine and other molecule. Perhaps by oxidation. > > I would greatly appreciate if you can advice me about it, whether there > is some kind of ligand I can try to fit and if this is something that > occurs in some structures. > Thank you. > Best regards, > Samer > > ------------------------------------------------------------------------ > > 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/
