Interpretation of family.mat automated template selection
Hi,
I am relatively new to modeller and would appreciate some help on the following:
I have look for some more information on the family.mat file but I am unsuccessful. If the following is the family.mat file how can it be interpreted: * 1uzeA @1.8 0 56 72 1j36A @2.4 56 0 78 1r42A @2.2 72 78 0*
The reason for this is I am in the process of writing a small pipeline to generate crude models and would like to make the template selection automated. Any ideas or pointers would be wonderful and greatly appreciated.
Thanks
On 09/02/2013 09:09 PM, Jurgens de Bruin wrote: > I have look for some more information on the family.mat file but I am > unsuccessful.
http://salilab.org/modeller/9.12/manual/node295.html
> If the following is the family.mat file how can it be interpreted: > * > 1uzeA @1.8 0 56 72 > 1j36A @2.4 56 0 78 > 1r42A @2.2 72 78 0
The second column is the resolution of the x ray structure; the rest is the distance matrix. For example, 1r42A and 1uzA are 72% dissimilar (i.e. the sequence identity is 100-72=28%).
> The reason for this is I am in the process of writing a small pipeline > to generate crude models and would like to make the template selection > automated. Any ideas or pointers would be wonderful and greatly appreciated.
Template selection is an entire industry in itself. You are welcome to look at our own ModPipe pipeline: http://salilab.org/modpipe/
Ben Webb, Modeller Caretaker
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Jurgens de Bruin -
Modeller Caretaker