Dear Peer, This reminds me of my colleague Michael Rossmann's discovery of a Pocket Factor which is a fatty acid-like molecule residing in a hydrophobic pocket underneath the "canyon" in enteroviruses. See https://link.springer.com/article/10.1007/s13238-014-0092-6. You likely have an endogenous ligand that binds and stays bound during purification. You may want to do some MS on your purified protein to see if you can identify it. Your density should provide enough information on a mass range to look for.
Andy Mesecar On Thu, Jun 3, 2021 at 6:50 AM Peer Mittl <mi...@bioc.uzh.ch> wrote: > I'm struggling with the electron density shown in the attachment. The > substance does not seem to come from the crystallization condition nor > from the mounting buffer. The 1.6 A maps are rather clear, because the > compound binds into the hydrophobic core, which seems to be loosely packed. > > -Peer > > > > ######################################################################## > > 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/ > -- *Andrew D. Me**secar* Head, Department of Biochemistry Walther Professor of Cancer Structural Biology Deputy Director, Purdue Center for Cancer Research E-Mail: amese...@purdue.edu _____________________________________________ *Department of Biochemistry Contact Information:* 175 S. University Street W. Lafayette, IN 47907-2063 765-494-1607 ------------------------------------------------------------------ *Research Lab Contact Information:* Hockmeyer Hall of Structural Biology Room 311 240 S. Martin Jischke Drive West Lafayette, IN 47907-1971 765-494-1924 _________________________________________ ######################################################################## 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/
