Dear all, I am fitting a 25 Å negative stain EM map of a protein in complex with its FAb. I have restraints on the protein region the FAb recognises (from ELISAs on truncated versions of the protein) but I do not have the sequence of the FAb.
I have a model for the protein and I picked a FAb from the PDB to be a representative FAb model which I believe is good enough to fit a 25 Å negative stain EM map. By "good enough" I mean: this model would answer the question: " Can I fit this map with the protein and a FAb model and would the relative FAb:protein arrangement satisfy the known restraints on the FAb epitope?" A PDB search with "unknown sequence" returns 17 entries: 1IVI,1TNV,1HR3,1QTJ,4CAT,2PGK,1PYK,1KGA,4GL8,1HKG,2YHX,1GRH,3LDH,4I79,1SNB,6IJ1,3CKM What is your experience with depositing into the PDB structures of proteins of unknown sequence? And as a user, would you accept an entry with a FAb as poly-Ala or Calphas only and poly-UNK? Thank you for any feedback you'll be able to let me have, with best wishes, Pietro Pietro Roversi Lecturer (Teaching and Research) https://le.ac.uk/natural-sciences/ LISCB Wellcome Trust ISSF Fellow <https://bit.ly/2I4Wm5Z>https://le.ac.uk/liscb/research-groups/pietro-roversi Leicester Institute of Structural and Chemical Biology Department of Molecular and Cell Biology, University of Leicester Henry Wellcome Building Lancaster Road, Leicester, LE1 7HB England, United Kingdom Skype: roversipietro Mobile phone +44 (0) 7927952047 Tel. +44 (0)116 2297237 ######################################################################## 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/
