Endopolygalacturonase SE1 from Trichosporon penicillatum has been crystallized by the hanging-drop method of vapour diffusion using ammonium sulfate as a precipitant. The crystals belong to the hexagonal space group P6(1) or P6(5), with unit-cell parameters a = b = 135.0, c = 70.7 A, gamma = 120 degrees. The calculated V(M) based on one molecule per asymmetric unit is 3.09 A(3) Da(-1). A native data set from a crystal has been collected to 2.0 A resolution on a Cu Kalpha rotating-anode X-ray source.