I’ve just been playing with a difference map to check something. If you fail to set the map as a difference map (either when opening the map initially, or using Calculate->Map Tools->Set map is a difference map), there’s nothing in the Display Manager->Properties window that tells you. I was wondering if that could be the issue, if the contour colour chosen when it isn’t set as a difference map doesn’t show up against the other map.
Randy
> On 2 Aug 2023, at 14:32, Andrea Smith <[log in to unmask]> wrote:
>
> Dear Eleanor,
>
> yes, I made the printscreen with the setting that shows both maps contoured at 0.08 = 3 rmsd.
>
> I also attach a printscreen from a site where I believe a Zn ion is bound (from my condition). Can see that Wincoot is drawing the map wrong...
> Andrea
>
>
>
> On Wednesday, August 02, 2023 15:28 CEST, Eleanor Dodson <[log in to unmask]> wrote:
>
>>
>> Hmmm -are the two ano maps contoured at the same level?
>> You can check this by setting the SCROLL option to the ano map.
>> The 2mFo-DFc maps look pretty identical..which suggests the two input mtz files are similar.
>> You can get more information by viewing the inputs to make sure the values are the same..
>> Eleanor
>> On Wed, 2 Aug 2023 at 13:53, Andrea Smith <[log in to unmask]> wrote:
>> Dear all,
>>
>> I used refmac in CCP4Cloud and then I opened the generated .pdb and .mtz from the CCP4Cloud job both in Linux Coot 0.9.6. and WinCoot 0.9.6. I can see different anomalous maps in Coot and Wincoot - see attached printscreen where on the left there is a green electron density between the aspartates while on the right there is none. I tried to search if this is a bug but couldn't find info about this.
>>
>> Am I doing something wrong? Do I have a local software issue?
>>
>> Any advice would be appreciated, best,
>> Andrea
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> https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 <Zn.png>
-----
Randy J. Read
Department of Haematology, University of Cambridge
Cambridge Institute for Medical Research Tel: +44 1223 336500
The Keith Peters Building
Hills Road E-mail: [log in to unmask]
Cambridge CB2 0XY, U.K. www-structmed.cimr.cam.ac.uk
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