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Re: [modeller_usage] Blast search for structures related to target

On 4/16/14, 1:26 AM, James Starlight wrote:

Does it possible to use blast search method within the modeller
script to create such seq_database_file pir file firstly which will
consist of all found pdb's structures with the defined threshold
sequence against target sequence (e.g not less as 50% of sequence
homology)?

You can use any method you like to detect templates (for example, 
ModPipe employs PSI-BLAST as well as our own methods). You just have to 
ensure that the files you feed Modeller are in formats (e.g. PIR) that 
it understands.

	Ben Webb, Modeller Caretaker
--
modeller-care@salilab.org             http://www.salilab.org/modeller/
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