Calcium carbonates and in particular amorphous calcium carbonate (ACC) are of great interest for bone substitution, due to their excellent biocompatibility and ability to release some of the bone mineral constitutive ions. Despite thorough investigations on ACC precipitation mechanism in the presence of a wide variety of additives to stabilise it, their influence on the composition and structuration of the resulting ACC is rarely finely characterised. In this article, pyrophosphate (Py) was studied as additive, due to its calcite inhibitor role and the good bioactive properties it demonstrated in vitro and in vivo. A series of pyrophosphate-stabilised ACC (PyACC) powders was synthesised by co-precipitation in water with a various amount of Py, and the structure, composition and multiscale organisation of the resulting compounds were thoroughly characterised. XRD, FTIR spectroscopy and FEG-SEM showed a reduction of the amount and size of calcite crystallites when increasing the Py content, crystallites co-existing with an increasing quantity of amorphous phase, up to obtaining fully amorphous materials above a certain Py amount. Beyond the stabilising role of Py, and considering SAXS, PDF and solid-state NMR analyses, we proposed an experimental model for PyACC based on vaterite-like (or proto-vaterite) cluster of 1 nm surrounded by a 2 nm-outer shell containing pyrophosphate ions and pseudo-structural water stabilising the cluster. This comprehensive study and the resulting model are predominant prerequisite to understand the underlying mechanisms of PyACC evolution and could contribute to the rational design of tunable amorphous and bioinspired inorganic bone substitute materials.