Marcus Byrd led the Pioneers (8-6) with 16 points. Joe Rosga scored 12 and Nate Engesser added 11. Denver went on a 15-2 run early in the second half to get within 39-38 and stayed as close as 48-46 before the Jacks pulled away.
Denver shot 55.6 percent from the field but managed only 36 field-goal attempts and two offensive rebounds.
It was South Dakota State's 22nd consecutive home win at Frost Arena.