Chinwe Ekenna wrote: > pls sir i wasn't able to download pdb locally so i did a blast and > got my target structure and sequence ...right now i'm at a loss of > how to get an alignment file as build _profile would not suffice for > this... how do i create an alignment file for my input or how do i > create a pir file from my template... thanks

You would have to manually create an alignment file (it's just a text file) and put the sequence(s) from BLAST into it. It's pretty easy to do this by hand.

Ben Webb, Modeller Caretaker