Hi
I am having some issues with the isomesh plot in PyMol. The map at same sigma
level in Coot and PyMol varies by a certain factor. From google search, I
notice that I am not the only one had such problem and following was the
relevant post some years ago. Now, how do I mimic coot in case I want to load
my own pdb and maps but not fetch? I did try the following steps with my pdb
and maps but while loading it doesn't like type=2fofc and async keywords.
Any help on this would be highly appreciating.
Thanks
Partha
In PyMOL:
>> # mimic Coot
>> set orthoscopic
>> set line_width, 5
>>
>> # get the data
>> fetch 1cll, async=0
>> fetch 1cll, type=2fofc, async=0
>>
>> # create the map; carve 2.5 Ang from the polymer
>> isomesh 1cll_map,1cll_2fofc, 1.06, poly, carve=2.5
>>
>> # find example residue
>> orient i. 78
>>
>> # color
>> color magenta, e. N
>> color tv_yellow, e. C
>>
>>
>> In Coot:
>> * Fetch 1CLL and its map from EDS
>> * zoom to residue 78
>> * scroll to 1.06 sigma
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