The incident took place when the ship detected some mechanical problems. But when the ship arrived at the dock, it began to sink and lot of passengers fell into water.
Firefighters said that the first body removed from the Rio Negro, main branch of the Amazonas, was a girl of 8 years, the other is a woman aged between 45 and 55 years.
According to Port Authority, the ship went to Manaus, main city in Brazilian Amazon region, to Santarem in the nearby Para state.
The rescue teams continue to search for more people who might have trapped inside the vessel.