[phenixbb] maps for PDB without SF's
Pavel Afonine
pafonine at lbl.gov
Fri Aug 15 13:24:16 PDT 2014
We do not have a user-exposed tool to compute exact map on the grid
(using n-gaussian approximation, that is the default in Phenix). However
you can calculate a Fourier map coefficients of very high resolution
(say 0.5-1A) and then convert it into actual map using phenix.mtz2map;
this should be a good approximation.
Pavel
On 8/15/14, 1:19 PM, PC wrote:
> I want map for this PDB which does not have the SF.
>
> So what should I do?
>
> -----Original Message-----
> *From:* pafonine at lbl.gov
> *Sent:* Fri, 15 Aug 2014 13:09:51 -0700
> *To:* phenixbb at phenix-online.org
> *Subject:* Re: [phenixbb] maps for PDB without SF's
>
> Hello PC,
>
> what you get is not the electron density map but its Fourier image
> of finite resolution. This is where the noise comes from. So...
> I'm puzzled what surprises you (or what is your question)?
>
> Pavel
>
> On 8/15/14, 12:59 PM, PC wrote:
>> Hi,
>>
>> I wanted to generate a map using calculate f(model) with fake P1
>> symmetry.
>>
>> The output is very noisy (blurred) when I open it in COOT.
>>
>> (NO there are no structure factors for this PDB entry).
>>
>> Thanks.
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