It's actually easier than that these days. Merely centre on an atom in
the symmetry-related position
and use Calculate -> Modelling -> Symm Shift Reference Chain Here
Paul.
On 10/02/2025 13:47, Matthew Snee wrote:
--
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
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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>, 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
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