The next year, at the 2006 FIBA World Championship, which was held in Japan, Zisis hit a game winning 3-point shot at the end of the game against the Australian national basketball team, to give Greece a 72–69 victory. However, in the next game in the tournament, he was hit on the cheekbone and eye socket bone by the elbow of the Brazilian national basketball team's Anderson Varejão. Zisis suffered a severe facial injury that forced him to sit out for the remaining entirety of the 2006 World Championship, as the injury required surgery. Even though Greece lost Zisis, who was their leading scorer the year before at the 2005 EuroBasket, they were still able to win the silver medal (including an improbable upset victory over Team USA in the semifinals) during the World Championship tournament.