[phenixbb] omit map

Jacob Keller j-keller2 at fsm.northwestern.edu
Fri Jun 3 08:44:17 PDT 2011


Can't you just delete your ligand from the pdb file?

Jacob

On Fri, Jun 3, 2011 at 10:41 AM, Desi Mail <desimail007 at gmail.com> wrote:
> But the 2Fo map around the ligand without omit is well defined.
> Phenix defines a very big box around the target pdb-includes surrounding
> protein residues. Is there a way to control this?
>
> The omit map of the water molecule in the binding site is also poor.
>
> Thanks
>
> On Fri, Jun 3, 2011 at 10:37 AM, Ed Pozharski <epozh001 at umaryland.edu>
> wrote:
>>
>> On Fri, 2011-06-03 at 10:21 -0400, Desi Mail wrote:
>> > But the 2Fo density around the ligand is very poor.
>> >
>>
>> perhaps your ligand is disordered
>>
>> --
>> "Hurry up before we all come back to our senses!"
>>                           Julian, King of Lemurs
>>
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>
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>



-- 
*******************************************
Jacob Pearson Keller
Northwestern University
Medical Scientist Training Program
cel: 773.608.9185
email: j-keller2 at northwestern.edu
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