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[ccp4bb] DM - NCS averaging after phaser molecular replacement run-confused about coefficients
 

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CCP4bb <-- 2008 <-- April 2008 <-- 04 April 2008
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Subject: DM - NCS averaging after phaser molecular replacement run-confused about coefficients
From: hari jayaram harijay {- at -} GMAIL {- dot -} COM
Date: 2008-04-04
Hi everyone,
I have a phaser molecular replacement solution for my membrane protein which
crystallized in spacegroup P3. The diffraction data is good to about 3.3 A.
The model I used had 39% homology to the given protein. A solvent content
analysis suggests that there probably are three dimers in the ASU ( to give
about 67% solvent)
Phaser sucessfuly found two dimers in the ASU with good density and a third
dimer with very weak almost "non-existent" density.
I am now trying to do some NCS-averaging using DM to see If I can improve
the desnity for dimer 3 and have a question about the different
co-efficients I should be using for the averaging DM run.

Question1:
The phaser output mtz file has a PHWT and a PHIC . For carrying out DM with
flattening, averaging and histogram matching which phases do I use PHIC or
PHWT along with observed Fo. Also for the weight do I use the FOM.

Question2:
The output mtz from DM run either way above , now has a PHIDM and a PHWT
along with a FWT and FC. Which coefficients should I be using to get a map
after DM for building.

FWT and PHWT
or
Fo and PHIDM
or
FWT and PHIDM.


Thank you for your help
Hari

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CCP4bb <-- 2008 <-- April 2008 <-- 04 April 2008
Previous message:
Subject: Re: Off topic: McDonalds Happy Meal and Crystallography
From: Ezra Peisach epeisach {- at -} BU {- dot -} EDU
Date: 2008-04-04 		Next message:
Subject: Re: Off topic: Real funny until someone loses a Happy Meal
From: William Scott wgscott {- at -} CHEMISTRY {- dot -} UCSC {- dot -} EDU
Date: 2008-04-04


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