Various works entered the Prado from the Museo de la Trinidad, including "The Fountain of Grace" by the School of Van Eyck, the Santo Domingo and San Pedro Martír altarpieces painted for the monastery of Santo Tomás in Ávila by Pedro Berruguete, and the five canvases by El Greco executed for the Colegio de doña María de Aragón.
Med zdaj zaprtimi muzeji, katerih zbirke so bile dodane v Prado sta bila Museo del la Trinidad leta 1872 in Museo de Arte Moderno leta 1971.