The use of finite entanglement scaling with matrix product states (MPS) has become a crucial tool for studying one-dimensional critical lattice theories, especially those with emergent conformal symmetry. We argue that finite entanglement introduces a relevant deformation in the critical theory. As a result, the bipartite entanglement Hamiltonian defined from the MPS can be understood as a boundary conformal field theory with a physical and an entanglement boundary. We are able to exploit the symmetry properties of the MPS to engineer the physical conformal boundary condition. The entanglement boundary, on the other hand, is related to the concrete lattice model and remains invariant under this relevant perturbation. Using critical lattice models described by the Ising, Potts, and free compact boson conformal field theories, we illustrate the influence of the symmetry and the relevant deformation on the conformal boundaries in the entanglement spectrum.