Re: [phenixbb] Appplying symmetry to a Cryo-EM map in phenix map_to _model

Hi Dr Terwilliger I have the pdb of the asymmetric unit and I am trying to fit it into my cryo-EM map of the whole structure( which has octahedral symmetry). Do I have so to do some-sort of pdb manipulation before the model_to_map operation ? This is my command phenix.map_to_model postprocess_test.mrc 2w0o_1chain.pdb resolution=4 d_min_ratio=0.89 seq_file=2w0o.fasta.txt >> model_to_map.log the fasta sequence and the pdb file are both of a single unit I hope my question makes sense this is my first time using phenix , Sincerely Joshua Lobo On Sun, Aug 6, 2017 at 7:44 AM, Terwilliger, Thomas Charles < [email protected]> wrote:

​Hi Joshua,

I'm sorry for the slow reply. In phenix.map_to_model you normally do not need to specify any space group information. (For cryo-EM we use "P1" as the "space group" but you don't have to specify it).

Let me know if that doesn't do it,

All the best,

Tom T

------------------------------ *From:* [email protected] on behalf of Joshua Jude Lobo *Sent:* Tuesday, August 1, 2017 12:50 PM *To:* [email protected] *Subject:* [phenixbb] Appplying symmetry to a Cryo-EM map in phenix map_to _model

Hi Phenix Group

I am very new to model building and using phenix . I am trying to use phenix.map_to_model to generate a model just using my cryo-EM map( mrc format) and a fasta sequence .My protein has octahedral symmetry . I found the use_space_group_symmetry argument but am not sure what argument to give to impose the symmetry .

Any inputs are appreciated

Sincerely Joshua Lobo University of Minnesota Twin Cities