Packaging structure for containers (3, 3′) for pharmaceutical use, comprising a tray (1) having an open side for introducing and extracting a support plane (2) of the containers (3, 3′), and a closing element (5) of the open side of the tray (1), said support plane (2) having a spatial prefixed distribution of seats (6) in which said containers (3, 3′) can be precisely positioned without mutual contact, whereby the structure comprises diversification means of the engaging configuration between said support plane (2) and said tray (1) in order to maintain unchanged the points inside the tray (1) in which an end (3a, 3a1) of the containers (3, 3′) is placed, with the variation of the height of the containers (3, 3′) associated from time to time to the support plane (2).