Typhoon Danas hit land near Kamakura in Kanagawa Prefecture on Tuesday morning and went on to buffet Tokyo and its vicinity, police and the Meteorological Agency said.
Five people have died, three were missing and 21 injured across the country due to the storm. Air, rail and road traffic suffered severe disruptions.
Vehicles stand trapped in a tunnel in Tokyo's Ota Ward by flooding caused by Typhoon Danas.