The low level of concept understanding of fungi, we need an appropriate learning model to overcome them. This research is aimed to determine the effect of guided discovery learning with hands on activity toward the concept understanding of fungi,with moderator variable is science learning motivation. The subject of this study are students of X IPA in SMAN 1 Bojonggede totalling 124 students on Januari–Maret 2018. The research method used quasi experiment with 2 x 2 factorial design model. The instruments used were tests of science learning motivation and fungi comprehension tests. Samples were taken using simple random sampling. Analysis of data used two way anova. Sampling with simple random sampling. Data analysis using two-way ANAVA. The results of the analysis show that: (1) There is an influence of understanding the concept of fungi after guided discovery learning through hands on activity (2) There is an influence of science learning motivation on understanding the concept of fungi. (3) There is an interaction of guided discovery learning through hands on activity and science learning motivation towards the concept understanding of fungi.