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[ccp4bb]: dyndom problem
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Hi
I would have liked to charakterize a domain movement in 2 closely
related proteins with DYNDOM.
Following the scripts provided and fiddling with the parameters I always
end up with thenfollowing message:
>>>>>>
********************************************************
WARNING NUMBER OF RESIDUES IN CHAINS IS DIFFERENT 303 300
determining backbone atoms of first conformer
determining backbone atoms of second conformer
number of residues used for analysis: 300
rmsd of whole protein best fit: 6.969 A
number of clusters: 1
number of clusters: 2
found cluster for which all domains are less than minimum domain size
so we stop
NO DYNAMIC DOMAINS FOUND
TRY ALTERING PARAMETER VALUES
<<<<<
I went on to try one of the default examples from the DynDom homepage
(cAMP dep. Kinase) with the exactly the scripts provided and the
respective pdb-files. But got the same result:
>>>>>
:
:
number of clusters: 3
found cluster for which all domains are less than minimum domain size
so we stop
NO DYNAMIC DOMAINS FOUND
TRY ALTERING PARAMETER VALUES
<<<
Is this a bug or (more likely) did I miss something?
Cheers
Alex