The study focuses on the creation of two relational databases to document: a) shipwrecks that occurred during the XVI and XVII centuries and b) their corresponding toponymic data, with the objective of generating historical documentation of research related to underwater archaeology in the Panama Area. Design and develop MySQL relational databases to store and analyze detailed information on historical shipwrecks and relevant toponymy to facilitate underwater archaeological research. The project adopted an interdisciplinary approach that integrated documentary and bibliographic research, paleographic analysis, database design and historical mapping. While designing the databases, information was collected from primary and secondary sources, documents in ancient Spanish were transcribed and analyzed, and MySQL database software was used to construct the databases. The databases were designed using the Entity-Relationship model, obtaining the entity-relationship diagram and the relational schema. Normalization theory was applied to eliminate redundancies. The resulting databases allow efficient and accurate management of information, facilitating analysis and research. The development of these MySQL relational databases provides a robust tool for research in underwater archaeology in the Panama Area, improving the accessibility and accuracy of information on shipwrecks and historical toponymy.