San Emeterio was a part of the Spain national team that won the bronze medal at the 2005 Mediterranean Games. He also was a member of the senior men's Spain national team that participated at the 2010 FIBA World Championship, and won the gold medal at the EuroBasket 2011. He also won the silver medal at the 2012 Summer Olympics, the bronze medal at the EuroBasket 2013, and the gold medal at the EuroBasket 2015.