The contest, spilling over to the second day, became lively after Bopanna and Qureshi won the fourth set to level the scores but ended up losing 7-6(3) 6-7(5) 3-6 6-4 5-7 against the unseeded Canadian-American combine in three hours and 13 minutes.
Now Leander Paes is the only Indian left in the men's doubles event of the grass court Grand Slam.
For Bopanna and Qureshi it was their second consecutive second-round exit at Grand Slam level.
At French Open also they had crashed out at this stage while at Australian Open they made the third round.