On 11/06/2018 04:15, [email protected] wrote:
this is my first thread here, and I am not sure this topic was discussed or
not, please tell me if it was.
It was not! Not to my memory at least.
Coot I thought is originally for density map of crystal, it can work on the cryo-em map too. I have a
cryo-em map of helical filament
congratulations.
and try to build a model.
good for you
I can build a model based on the monomer, but I am
not sure how to generate the copies based on the symmetry. I think the key problem is how to determine the
rotation center which based on the map, then the rotation center together with the known helical parameters
can do it.
You do not need to know the rotation centre. You do need to know the rotation
and translation.
Coot could make this easier for you. I will work on this at some stage... but
for now...
suppose we got the rotation center, how to implement these operations in Coot?
Certainly, there is a stupid way which I already did, that is to copy the refined monomer multiple times and
fit them all together,
This is in fact the regular practice here (amongst my colleagues). The idea is to build make 5 copies,
A,B,C,D,E and fix up the C chain in coot and then copy over the differences/updates to A,B,D,E.
> later were refined using the Phenix.
OK.
another way is try to edit the pdb file directly. rotate and translate the
monomer, later change the chain ID.
But I want to do it simply in Coot, could it possible?
Draw -> NCS Ghost Control -> NCS Master Chain -> C -> OK
Extensions -> NCS -> Copy NCS Chain -> C -> OK
Paul.
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