Nicklas Nielsen took the chequered flag after a vintage and gruelling race, the Dane sharing driving duties in the Italian constructor's No. 50 car with Italian Antonio Fuoco and Spaniard Miguel Molina.
Toyota's No. 7 car took second with Ferrari's No. 51 car, which triumphed last year, completing the podium.
Twenty-four long hours, 311 laps and 4,238 kilometres after French football great Zinedine Zidane had sent the 62-car grid on its way on Saturday, the Ferrari that emerged victorious after a classic version of motorsport's supreme endurance test.
Porsche's pole-sitting No. 6 car narrowly missed a podium place in fourth ahead of Toyota's No. 8 car, with just over a minute covering the first five.