General routes to confined spaces of well-defined chemical composition and complex three-dimensional structure have long been sought by materials chemists. Here, we introduce metal organic framework (MOF) materials as an ideal scaffold upon which such organized complexity can be built. Employing an orthogonal coordination strategy, we constructed a large-pore MOF material with two different modifiable linkers in well-defined positions relative to each other. The independent and quantitative covalent grafting of two distinct chemical groups onto these differently reactive linkers yielded a uniformly bifunctionalized MOF material. Not only does this methodology offer an efficient route via which the properties of well-defined microporous materials can be fine-tuned, but it also creates a solid-state platform for synthetically accessing constructs that better emulate the well-ordered intricacy of biological structures.