Hi everybody,<br><br>I would like to calculate the omit map around the ligand.  I followed the documentation<br><a href="http://www.phenix-online.org/documentation/autobuild.htm#anch159">http://www.phenix-online.org/documentation/autobuild.htm#anch159</a><br>
<br>But the 2Fo density around the ligand is very poor.<br><br>Any help is appreciated.<br><br>Thanks<br>Mary <br><h5>Make a SA-omit map around atoms in target.pdb</h5>
<p><a name="anch168" id="Make_a_SA-omit_map_around_atoms_in_target_pdb_2"></a>

</p><pre style="">phenix.autobuild data=data.mtz model=coords.pdb omit_box_pdb=target.pdb   composite_omit_type=sa_omit<br></pre>
Coefficients for the output omit map will be in the  file
resolve_composite_map.mtz in the subdirectory OMIT/ .
An additional map coefficients file omit_region.mtz will show you the
region that has been omitted. 
(Note: be sure to use the weights in both
resolve_composite_map.mtz and omit_region.mtz).


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