Rodriguez was the third player to be hit by a pitch from Hernandez. He immediately fell to the ground, wincing in pain and was removed from the game.
The Yankees said afterward that A-Rod had a non-displaced fracture of the left hand, and there was no timetable for his return. He will be placed on the disabled list and will see the team's doctor when the club returns to New York after Wednesday's series finale.
Hernandez also hit Derek Jeter and former teammate Ichiro Suzuki.