Strategy to deconvolute the alignment accuracy and structural complementarity effects on two-template model accuracy. (A) A pair of models is built alternatively on the same modeling alignment in presence of one (bottom) and both templates (top). The Target segment corresponding to the box has no structural information in absence of Template2. ALN stands for alignment type (SEQuence or STRucture). (B) The total improvement of multiple template models over single template models is a combination of decreasing alignment errors and structural complementarity.