The spontaneous ordering of molecules into two-dimensional self-assembled arrays is commonly stabilized by directional intermolecular interactions that may be promoted by the addition of specific chemical side groups to a molecule. In this paper, we show that self-assembly may also be driven by anisotropic interactions that arise from the three-dimensional shape of a complex molecule. We study the molecule mn 12 o 12 (o 2 CCH 3 ) 16 (H 2 o) 4 (mn 12 (acetate) 16 ), which is transferred from solution onto a Au(111) substrate held in ultrahigh vacuum using electrospray deposition (uHV-EsD). The deposited mn 12 (acetate) 16 molecules form filamentary aggregates because of the anisotropic nature of the molecule-molecule and molecule-substrate interactions, as confirmed by molecular dynamics calculations. The fragile mn 12 o 12 core of the mn 12 (acetate) 16 molecule is compatible with the uHV-EsD process, which we demonstrate using near-edge X-ray adsorption fine-structure spectroscopy. uHV-EsD of mn 12 (acetate) 16 onto a surface that has been prepatterned with a hydrogen-bonded supramolecular network provides additional control of lateral organization.