We present the two-level homogenization of the flow in a deformable double-porous structure described at two characteristic scales: the higher level porosity associated with the mesoscopic structure is constituted by channels in an elastic skeleton which is made of a microporous material. The macroscopic model is derived by the asymptotic analysis of the viscous flow in the heterogeneous structure characterized by two small parameters. The first level upscaling yields a Biot continuum model coupled with the Stokes flow. The second step of the homogenization leads to a macroscopic flow model which attains the form of the Darcy-Brinkman flow model coupled with the deformation of the poroelastic continuum involving the effective parameters given by the microscopic and the mesoscopic porosity features.