Lysine-specific histone demethylase 1A (LSD1) targets histone H3 lysines to regulate transcription. Wang et al. found that, in vitro, a neuronal LSD1 isoform (LSD1n) targeted a different substrate: histone H4 lysine 20 (H4K20). Lsd1n knockout (Lsd1n−/−) mouse neurons showed increased H4K20 methylation and impaired gene transcription following neuronal activity, and Lsd1n−/− mice showed deficits in two learning and memory tasks. Thus, LSD1n may promote activity-induced transcription in neurons and thereby regulate memory formation.