How ATP is made. 1. Hydrogen ions have accumulated inside the thylakoid through the splitting of water and the pumping of hydrogen ions. 2. Hydrogen ion gradient- there are more hydrogen ions inside the thylakoid than the stroma. 3. Enzyme ATP Synthase, is a "rotary motor" that makes ATP by adding a phosphate group to ADP as it spins. 4. Concentration gradient of Hydrogen ions aids in ATP synthesis- Hydrogen ions diffuse through ATP synthase causing it to spin