Dear Sir,
This is to bring to your kind notice that I want to use your software ITASSER for modelling a protein for which the complete structure is not available with crystallographic data, though specific domains have been solved and those structures are available in PDB. I tried using ITASSER putting the target sequence and without giving any other specifications. The results returned to me showed that the top 10 templates taken for modelling doesn't include any of the available templates for specific domains.
I repeated the modelling, this time choosing one available template for a specific domain, but it returned me with similar result where neither the template I mentioned nor any of the other relevant templates were taken.
I would be very grateful if you can kindly find me a solution to this problem, and let me know that how can I get a model for a protein by using the available templates of different domains of the protein.