[Chimera-users] needing help for separating structures

[David Gae]

Dear Yu,

Since I don’t know what S2 and S3 richer state is… I don’t know if this is going to help. 
but, you can open, select and save pdb chains in chimera command line and view only the selected subunits:

Example:
1) View only the selected chain
~display
~ribbon
disp :.A-B

2) saving only selected PDB files 
open 6DHO 
select :.A-B
write selected 0 test.pdb 

then follow step 1.

if you don’t like cif file formats you can convert them in Phenix package (PDB tools).

Hope this helps,
David 

> On Nov 24, 2018, at 11:28 AM, Yu Guo <yg2 at kth.se> wrote:
> 
> Dear Sir/Madam,
>          I am using Chimara to display large proteins. It is very nice. 6DHO(PDB structure, see attachment) is a very recent PSII structure consisting both S2 and S3(richer) states, which are highly overlapped in the raw data. I am urgently wondering how can I separate S3 out from the S2/S3 mixture by Chimera, especially the OEY​ cluster and all its ligands? Thank you very much!
> Best wishes
> 
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