Hi Marco Is the N terminal part present in the correct place if you show symmetry in COOT?
If so you can just save the symmetry coordinates and merge it in to the chain it is supposed to belong to. Best wishes Matthew. ________________________________ From: CCP4 bulletin board <CCP4BB@JISCMAIL.AC.UK> on behalf of Burak Veli Kabasakal <burakv...@gmail.com> Sent: 10 February 2025 11:40 To: CCP4BB@JISCMAIL.AC.UK <CCP4BB@JISCMAIL.AC.UK> Subject: Re: [ccp4bb] CCP4 Cloud structure determination help Hi Marco, I would try MR with the N-terminal domain only separately, or the domains that fit well in one single chain, and the N-terminal domain other chain and try to find these two in the map with MR. Good luck, Burak Marco Bravo <0000d0eb7bee83ae-dmarc-request@ jiscmail. ac. uk>, ZjQcmQRYFpfptBannerStart This Message Is From a New External Sender You have not previously corresponded with this sender. Please exercise caution when opening links or attachments included in this message. ZjQcmQRYFpfptBannerEnd Hi Marco, I would try MR with the N-terminal domain only separately, or the domains that fit well in one single chain, and the N-terminal domain other chain and try to find these two in the map with MR. Good luck, Burak Marco Bravo <0000d0eb7bee83ae-dmarc-requ...@jiscmail.ac.uk<mailto:0000d0eb7bee83ae-dmarc-requ...@jiscmail.ac.uk>>, 10 Şub 2025 Pzt, 06:17 tarihinde şunu yazdı: Hello all, I am currently trying ccp4 cloud for structure solution of a 4 domain protein, 543 amino acids monomeric protein. I split the aplhaphold model into 4 domains, and prepared a single chain ensemble with the 4 domains . I see a good fit for two of the C-terminal large domain that appear to be in a correct/similar position compared to other known structures of homologs and the alphafold model. the 3rd domain from the c-terminus also fits well in the map but is in a different part of the unit cell, and nowhere near the other two C-terminal domains that also fit the map well. Finally, the most N-terminal domain does not fit the map at all. What is the best way to move forward with this mr solution from phaser in ccp4 Cloud? I am looking to move forward with the seemingly correct placed coordinates to try to get a better solution. Also I do not necessarily require to use exclusively ccp4 cloud I just appreciate its cloud based speed. Thank! Marco ######################################################################## To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 [jiscmail.ac.uk]<https://urldefense.com/v3/__https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1__;!!PDiH4ENfjr2_Jw!HVitjea3yYTjrPjtLRwz5Z0OSqHtr3s-rbBo66D6qKslMWh_FMk_0QRSqH3W4h7mZQ7OT2idDqDgp_yGCilIyVQ-e6QzTw$> This message was issued to members of www.jiscmail.ac.uk/CCP4BB [jiscmail.ac.uk]<https://urldefense.com/v3/__http://www.jiscmail.ac.uk/CCP4BB__;!!PDiH4ENfjr2_Jw!HVitjea3yYTjrPjtLRwz5Z0OSqHtr3s-rbBo66D6qKslMWh_FMk_0QRSqH3W4h7mZQ7OT2idDqDgp_yGCilIyVT0BmOF2A$>, a mailing list hosted by www.jiscmail.ac.uk [jiscmail.ac.uk]<https://urldefense.com/v3/__http://www.jiscmail.ac.uk__;!!PDiH4ENfjr2_Jw!HVitjea3yYTjrPjtLRwz5Z0OSqHtr3s-rbBo66D6qKslMWh_FMk_0QRSqH3W4h7mZQ7OT2idDqDgp_yGCilIyVSwJNrwow$>, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/ [jiscmail.ac.uk]<https://urldefense.com/v3/__https://www.jiscmail.ac.uk/policyandsecurity/__;!!PDiH4ENfjr2_Jw!HVitjea3yYTjrPjtLRwz5Z0OSqHtr3s-rbBo66D6qKslMWh_FMk_0QRSqH3W4h7mZQ7OT2idDqDgp_yGCilIyVTzCmwIpw$> ________________________________ To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 [jiscmail.ac.uk]<https://urldefense.com/v3/__https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1__;!!PDiH4ENfjr2_Jw!HVitjea3yYTjrPjtLRwz5Z0OSqHtr3s-rbBo66D6qKslMWh_FMk_0QRSqH3W4h7mZQ7OT2idDqDgp_yGCilIyVQ-e6QzTw$> ######################################################################## 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/
