Water, when broken, makes oxygen, hydrogen, and electrons. These electrons move through structures in chloroplasts and by chemiosmosis, make ATP. The hydrogen is converted to NADPH which is then used in the light-independent reactions. Oxygen diffuses out of the plant as a waste product of photosynthesis.This all happens in the thylakoid of chloroplasts.ater, when broken, makes oxygen, hydrogen, and electrons. These electrons move through structures in chloroplasts and by chemiosmosis, make ATP. The hydrogen is converted to NADPH which is then used in the light-independent reactions. Oxygen diffuses out of the plant as a waste product of photosynthesis.