Do the mass spec of your crystal to identify the other protein. Once done solve your structure and build the complete model. This should be straight forward and quick.
Best Wishes On Sat, 4 Nov 2023, 09:05 Sam Tang, <[email protected]> wrote: > Dear community, > > I am solving the structure of a complex between proteins A and B, where A > is a protein with known homologs and B is a novel protein isolated from > plant. The diffraction data was at 1.9 Ang collected in-house, indexed to > P321. Using A as the search model, we have got a reasonable solution where, > after one round of refinement, the A chain fits the map pretty well. What's > left was to extend the termini and fit a few rotamers. > > For protein B (B chain) I have tried the web version of ARP/wARP but the > outcome was not really good. The model was not successfully built as > indicated by low model completeness and score. The tricky thing may be that > we do not have the complete sequence information of this protein B in-hand. > (The other way round, we more or less wish to rely on the high resolution > data to confirm its sequence.) What approach would you then recommend to > build the B chain in this scenario? > > Thanks in advance and best regards, > > Sam > > ------------------------------ > > 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/
