Hi Wojtek,
attached is a simple Python script that will read in your EM map (in ccp4
format; I can trivially change the script so it reads x-plor map too) and
it will write out MTZ file containing:
- complex array of Fobs (Fobs_cmpl), which is just a Fourier transform of
the input map;
- real arr
Hello Wojtek,
a more straightforward approach is to use the rigid body refinement
implemented in Situs. http://situs.biomachina.org/fguide.html
After placing your pdb into the map via the colores program, you can refine
the positions of individual portions using collage, by splitting your pdb
int
Hi Wojtek,
you need to convert your EM map into a reflection file (for example, cns or
mtz formatted, format doesn't matter). This reflection file should contain
"Fobs" - the amplitudes of Fourier map coefficients and phases
corresponding to your EM map. The phases should be presented as
Hendricks
CP4BB@JISCMAIL.AC.UK
Objet : Re: [ccp4bb] Rigid body refinement with phenix using EM maps.
Dear Bruno,
Thank you very much for your quick response!
I've managed to generate mtz file (I've only needed to add "set spacegroup P1"
while running sftools).
However, the problem remains.
I a
required for running fittings/refinements etc.).
Best,
Bruno
/usr/local/rave/rave_linux/lx_mapman<mailto:CCP4BB@JISCMAIL.AC.UK] De la part de Wojtek
Potrzebowski
Envoyé : Friday, July 13, 2012 5:28 PM
À : CCP4BB@JISCMAIL.AC.UK
Objet : [ccp4bb] Rigid body refinement with phenix using EM
<mailto:CCP4BB@JISCMAIL.AC.UK] De la part de Wojtek
Potrzebowski
Envoyé : Friday, July 13, 2012 5:28 PM
À : CCP4BB@JISCMAIL.AC.UK
Objet : [ccp4bb] Rigid body refinement with phenix using EM maps.
Dear all,
I want to refine a model of the complex that consists of rigid subunits using
an e
Dear all,
I want to refine a model of the complex that consists of rigid subunits
using an electron microscopy electron density map.
I've tried to use phenix for this purpose. Thus I have to back-FT the
electron density map to a mtz reflection file.
I've experienced problem using sfall for this
