[phenixbb] difference map

[intekhab alam]

Hi i am trying to calculate a difference map ( ligand-native ) using
isomorphous difference map program in phenix. I used the reflection files of
ligand and native and phase information of ligand derived data. But the
difference map donot fits the ligand, and appears as a circular chunk of
density at sigma level 5. I calculated an omit map that clearly showed the
presence of my ligand at the specific position. Is there anything wrong in
my calculation. What alternate ways are there to improve my difference map.

-- 
INTEKHAB ALAM
LABORATORY OF STRUCTURAL BIOINFORMATICS
KOREA UNIVERSITY, SEOUL
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