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I got a protein complex structure including 26 subunits and molecular weight 1MDa with overall resolution at 4.0A, after local resolution calculation, some parts even are close to 3.5A, but one part goes to 15A, I tried to use multibody refinement in the Relion,
I only can give two bodies (due computer limit). After multibody refinement, resolution can improve to 6A, I tried focus refinement, it is not working, I wonder what difference between multibody refinement ( two bodies ) and focus refinement?</div>
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Do you have a detail tutorial for focus refinement? </div>
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For focus refinement, after i did multibody refinement, I did particle subtraction, then do 3D auto-refinement with subtraction particles, the command like:</div>
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`which relion_refine_mpi` --o Refine3D/job084/run --auto_refine --split_random_halves --i Subtract/job068/subtracted.star --ref MultiBody/job056/run_body001.mrc --ini_high 15 --dont_combine_weights_via_disc --no_parallel_disc_io --pool 10 --pad 1 --skip_gridding
--ctf --ctf_corrected_ref --particle_diameter 200 --flatten_solvent --zero_mask --solvent_mask MultiBody/job056/run_body001_mask.mrc --solvent_correct_fsc --oversampling 1 --healpix_order 2 --auto_local_healpix_order 4 --offset_range 5 --offset_step 2 --sym
C1 --low_resol_join_halves 40 --norm --scale --j 2 --gpu "" --pipeline_control Refine3D/job084/</div>
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<span>The focus refinement result is worse than multibody refinement.</span></div>
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<span>Any input?</span></div>
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<span><br>
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<div style="color:black; font-size:12pt; font-family:Calibri,Arial,Helvetica,sans-serif">
<span>Haiyan Zhao<br>
</span></div>
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<div id="divRplyFwdMsg" dir="ltr"><font face="Calibri, sans-serif" style="font-size:11pt" color="#000000"><b>From:</b> 3dem <3dem-bounces@ncmir.ucsd.edu> on behalf of 3dem-request@ncmir.ucsd.edu <3dem-request@ncmir.ucsd.edu><br>
<b>Sent:</b> Saturday, July 11, 2020 1:00 PM<br>
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<b>Subject:</b> 3dem Digest, Vol 155, Issue 19</font>
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1. Re: Tools for Sample Prep & Loading (Jean-Philippe Demers, Mr)<br>
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Message: 1<br>
Date: Sat, 11 Jul 2020 08:26:58 +0000<br>
From: "Jean-Philippe Demers, Mr" <jean-philippe.demers@mail.mcgill.ca><br>
To: Michael Godfrin <mgodfrin@nanosoftmaterials.com>,<br>
"3dem@ncmir.ucsd.edu" <3dem@ncmir.ucsd.edu><br>
Subject: Re: [3dem] Tools for Sample Prep & Loading<br>
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________________________________<br>
From: 3dem <3dem-bounces@ncmir.ucsd.edu> on behalf of Michael Godfrin <mgodfrin@nanosoftmaterials.com><br>
Sent: Friday, July 10, 2020 5:16:07 AM<br>
To: 3dem@ncmir.ucsd.edu <3dem@ncmir.ucsd.edu><br>
Subject: [3dem] Tools for Sample Prep & Loading<br>
<br>
Hello Everyone,<br>
<br>
We are now offering the Autogrid Tweezers<<a href="https://urldefense.com/v3/__https://www.nanosoftmaterials.com/autogrid-tweezer__;!!Mih3wA!WQP7K2_-M6BGn68iB-5ASXdMjh6jdrFdMs2AE50loTgYcz9-lwoh-0coGkNfYb_gmQ$">https://urldefense.com/v3/__https://www.nanosoftmaterials.com/autogrid-tweezer__;!!Mih3wA!WQP7K2_-M6BGn68iB-5ASXdMjh6jdrFdMs2AE50loTgYcz9-lwoh-0coGkNfYb_gmQ$</a>>
that are used to handle autogrids/cartridges and load them into the autoloader cassette. Our version performs the same as the Thermo Fisher Scientific version (same critical geometries), while we offer them at a much lower price, so they are a great option
for replacement of damaged Autogrid Tweezers or to build up a rotation of them for the workflow.<br>
<br>
We are also offering the metal components<<a href="https://urldefense.com/v3/__https://www.nanosoftmaterials.com/vitrobotdewarparts__;!!Mih3wA!WQP7K2_-M6BGn68iB-5ASXdMjh6jdrFdMs2AE50loTgYcz9-lwoh-0coGkNX7tbQuQ$">https://urldefense.com/v3/__https://www.nanosoftmaterials.com/vitrobotdewarparts__;!!Mih3wA!WQP7K2_-M6BGn68iB-5ASXdMjh6jdrFdMs2AE50loTgYcz9-lwoh-0coGkNX7tbQuQ$</a>>
of the Vitrobot dewar. Each of the metal parts performs equally to the Thermo Fisher version, and are offered at a lower price (we have found even comparable to university machine shop pricing) so can replace lost or damaged parts or also be used for custom
plunge systems.<br>
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Have a nice weekend!<br>
Mike<br>
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Michael Godfrin, PhD<br>
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Cell: (401) 829-5527<br>
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<<a href="https://urldefense.com/v3/__http://www.nanosoftmaterials.com__;!!Mih3wA!WQP7K2_-M6BGn68iB-5ASXdMjh6jdrFdMs2AE50loTgYcz9-lwoh-0coGkPVjy6e8A$">https://urldefense.com/v3/__http://www.nanosoftmaterials.com__;!!Mih3wA!WQP7K2_-M6BGn68iB-5ASXdMjh6jdrFdMs2AE50loTgYcz9-lwoh-0coGkPVjy6e8A$</a>><br>
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