The central microtubule cap is bound to the ends of the two central microtubules in Tetrahymena thermophila cilia by plug-shaped structures similar in appearance to the distal filament plugs attached to the ends of the A-microtubules. The caps have been separated from the microtubules and are composed of a bead, two plates, and two peg-like plugs to which the microtubules are attached. The structure of the cap is discussed in relation to the directionality of microtubule assembly in vivo.