Modern science is going through a period of important reflection on the role of different agents and multiple disciplines in the management and safeguarding of architectural heritage. This new focus generates a greater amount and diversity of information, so the implementation of a unifying tool in the framework of digital information models would mean a better knowledge of cultural heritage as well as aiding its safeguarding and protection. In addition, it must be taken into account that, for the correct management of information in its broadest dimension, this tool must make it possible to relate alphanumeric data about an item of heritage to its spatial location. In this sense, this article proposes a Heritage Information System (HIS)—understood as a digital knowledge tool—that consists of a relational database and a map manager with Geographic Information System (GIS) technology (a geodatabase). The methodology suggested here sets out the steps that make up the HIS, so that the system can be applied to other geographical elements or realities. For this reason, a study was made of “La Cultura del Agua” in Valverde de Burguillos (Spain), a heritage ensemble that consists of rural architecture and dispersed preindustrial elements, which are currently at risk. The HIS seeks to develop a more complete identification of these elements (individually and as a system) and a justified argument for their being given value and great visibility. This new approach encourages sustainable development in terms of efficiency and effectiveness for the analysis, diagnosis, and reactivation of cultural heritage, always placing importance on the balance of social participation with the territory in which the system is applied, and with global society.