Alvaro Bautista put in a commendable ride in the tyre-melting temperatures to rise from 13th on lap one to eighth at the flag. Aleix Espargaro was the only Pramac rider to finish after team-mate Mika Kallio crashed out of ninth with eight laps to go.
The fourth rider not to reach the flag was Spies' Monster Yamaha Tech 3 team-mate Colin Edwards, who made two pits stops before retiring. The Texan seemed to suffer tyre problems.
Hiroshi Aoyama, making his MotoGP return from a fractured vertebra at Silverstone, finished in twelfth, with another recovering rider - Honda LCR's Randy de Puniet - 13th and last.
Indianapolis Grand Prix:
13. de Puniet