We present a combinatorial model of configuration spaces and polytopes associated to the quotients of $\mathbb{C} A_n$, the path algebra of the linearly oriented $A_n$ quiver, i.e. the algebra of upper triangular matrices. These quotient algebras are known as linear Nakayama algebras. Such configuration spaces were recently introduced for more general algebras by the second author and collaborators. In this special setting, we provide elementary proofs and explicit combinatorial constructions. From a Dyck path we define three related objects: a finite-dimensional algebra, an affine algebraic variety, and a polytope. Moreover, our constructions are natural: each relation in the poset of Dyck paths gives a morphism between the corresponding objects.