Alaska State Troopers identified the victim as David Allan Oltman, 38, of Washington state.
The plane, operated by Peninsula Airways, or PenAir, left Anchorage around 3:15 p.m. Thursday with 42 people on board, including 39 passengers and three crew members, a statement from the company said. One passenger was a child under age 2, said Clint Johnson, chief of the Alaska region for the National Transportation Safety Board.
The flight landed around 5:40 p.m. and went off the end of the runway. PenAir is owned by Ravn Air Group and said it is cooperating with federal investigators.
"On behalf of PenAir, Ravn Air Group and all our employees throughout the company, we would like to extend our deepest sympathies and condolences to the family and loved ones of our passenger who passed away," Dave Pflieger, president of RavnAir Group, said in a statement.
Johnson said a team of nine NTSB investigators was expected in Anchorage late Friday. Some members would remain in Anchorage while others were expected to travel to Unalaska early Saturday, he said. Additionally, an agency investigator from Alaska was expected to be on scene as the flight data and cockpit voice recorders were removed from the plane, he said.
The city, in a statement, said responders arrived at the scene within five minutes of the crash. It said 11 people were taken a local clinic with injuries ranging from minor to critical. That number included the man who died and another person who was flown to Anchorage for medical care.
City Clerk Marjie Veeder said she was told by the head of the local first responders that the flight manifest was 39 people on board. Told of the discrepancy regarding the number of people on the plane, Debbie Reinwand, a media contact for PenAir, did not comment on the manifest but reiterated company statements saying there were 42 on board.
Law enforcement has secured the scene pending the arrival of NTSB investigators, the city said.
In a statement Friday evening, PenAir said that it plans to remove its airplane from the scene of the crash on Saturday. The state Department of Transportation determined the runway was not damaged by the crash, the company said.
A Ravn Air Group flight brought in investigators from the state transportation department and the NTSB, PenAir said. It then returned the Cordova High School swim team, which was on the airplane that crashed, to Anchorage.
Unalaska is about 825 miles (1,330 kilometers) southwest of Anchorage.