: Re: [PyMOL] about Display CCP4 Maps
On Tue, Oct 25, 2011 at 7:56 PM, Thomas Holder spel...@users.sourceforge.net
wrote:
Hi Lina,
do you already have any electron density or reflection file (*.map,
*.mtz,
...) or do you want to create a fake density from your structure?
It's not
I don't
Hi,
I went through the pymolwiki and cross this page:
http://www.pymolwiki.org/index.php/Display_CCP4_Maps
I have some questions:
1] do I need generate the map from ccp4
(I have already installed the ccp4i, but seems not easy to know how
to get the map)
2] For small molecular (ligand), the
Hi Lina,
do you already have any electron density or reflection file (*.map,
*.mtz, ...) or do you want to create a fake density from your
structure? It's not clear from your question.
Cheers,
Thomas
On 10/25/2011 10:28 AM, lina wrote:
Hi,
I went through the pymolwiki and cross this
On Tue, Oct 25, 2011 at 7:56 PM, Thomas Holder
spel...@users.sourceforge.net wrote:
Hi Lina,
do you already have any electron density or reflection file (*.map, *.mtz,
...) or do you want to create a fake density from your structure? It's not
I don't have the reference electron density file.
Lina,
If you want to create an "omit" map for your ligand using CCP4i, you
can find instructions here for both Fo-Fc and 2Fo-Fc maps:
http://capsicum.colgate.edu/chwiki/tiki-index.php?page=Model+Building+and+Validation#Creating_Omit_Maps_for_Ligands_using_Refmac
To display an omit map in
On 10/25/2011 02:27 PM, lina wrote:
On Tue, Oct 25, 2011 at 7:56 PM, Thomas Holder
spel...@users.sourceforge.net wrote:
Hi Lina,
do you already have any electron density or reflection file (*.map, *.mtz,
...) or do you want to create a fake density from your structure? It's not
I don't
And read the help for the map_new command (there is no wiki page yet):
PyMOLhelp map_new
now the wiki page is there:
http://pymolwiki.org/index.php/Map_new
Cheers,
Thomas
--
Thomas Holder
MPI for Developmental Biology
Hi Lina,
1] do I need generate the map from ccp4
(I have already installed the ccp4i, but seems not easy to know how
to get the map)
The CCP4 file is a map. Once the map is loaded into PyMOL you can choose how
you want to represent the data: isomesh, isosurface, slice, gradient, or the
new
On Wednesday 26,October,2011 12:55 AM, Jason Vertrees wrote:
Hi Lina,
1] do I need generate the map from ccp4
(I have already installed the ccp4i, but seems not easy to know how
to get the map)
The CCP4 file is a map. Once the map is loaded into PyMOL you can
choose how you
