Matthew & Nat,
Thanks very much, your answers made me much clear about the map
manipulating, as well as usage of Refmac and FFT. Just from my results, I
think I agree with Nat that "Sigma" and "Weight" is unnecessary when running
FFT based on a Refmac-resulted mtz file, since my "A1.map" is exactl
On Fri, Jan 7, 2011 at 2:34 PM, Matthew Franklin wrote:
> However, I'm not sure if you're doing the right thing by leaving SIGF
> unassigned. I believe this should be assigned to the experimental error,
> which is usually called 'SIGF' in your mtz file. I don't know if FFT
> actually uses this
[mailto:ccp...@jiscmail.ac.uk] On Behalf Of
Zhihong Yu
Sent: Friday, January 07, 2011 4:31 PM
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] The density shown in Pymol and Coot is different.
Hi, Nian,
Thanks for your reply. I figured out the problem just now. The difference
indeed came from
Hi, Nian,
Thanks for your reply. I figured out the problem just now. The difference
indeed came from my FFT transformation. I just used all default parameters
when I transform "A.mtz" to "A.map", so in the "Run FFT" dialog, F1= F,
Sigma=SIGF, PHI=PHIC, Weight=Unaasigned, and I got "A.map" under th
Hi,all
I refined a protein-ligand complex structure using Refmac5 and got the map
coefficient "A.mtz" file. I want to represent the electron density in Pymol,
so I transformed "A.mtz" into "A.map" ccp4-format map file using FFT in
ccp4i (parameters are: generate "simple" map in "CCP4" format to co
