Abstract: The set LS(n) of Latin squares of order n can be represented in R<sup>n<sup>3 as a (n−1)<sup>3-dimensional 0/1-polytope. Given an autotopism Θ=(α,β,γ)∈A<em>n, we study in this paper the 0/1-polytope related to the subset of LS(n) having Θ in their autotopism group. Specifically, we prove that this polyhedral structure is generated by a polytope in R<sup>((n</sup></em>α−l<em>α<sup>1)⋅</sup>n<sup>2</sup>+l</em>α<sup>1⋅</sup>n<em>β⋅n)−(l</em>α<sup>1⋅</sup>l<em>β<sup>1⋅</sup>(n−l</em>γ<sup>1)</sup>+l<em>α<sup>1⋅</sup>l</em>γ<sup>1⋅</sup>(n<em>β−l</em>β<sup>1)</sup>+l<em>β<sup>1⋅</sup>l</em>γ<sup>1⋅</sup>(n<em>α−l</em>α<sup>1)), where n<em>α and n</em>β are the number of cycles of α and β, respectively, and lδ​<sup>1 is the number of fixed points of δ, for all δ∈α,β,γ. Moreover, we study the dimension of these two polytopes for Latin squares of order up to 9.