On 3/27/25 3:01 PM, Fred Pontes via modeller_usage wrote: > I'm a beginner in using MODELLER and I need help to fix my files > in my modelling. I'm trying to build a homology model using two > templates. I'd like to select different regions of each template to > build my model. ... > I replace the amino acid symbol for '-' when they are present in a > region that I don't want to use as a template. You still have to include the full template sequence; you can't remove it and replace it with '-'. If you don't want to align it with the model, see https://salilab.org/modeller/FAQ.html#2 Ben Webb, Modeller Caretaker -- modeller-care@salilab.org https://salilab.org/modeller/ Modeller mail list: https://salilab.org/mailman/listinfo/modeller_usage