Not totally sure why your frames are deeper than the brood hive box.
mine are standard Langstroth deeps that measure 9 5/8". These deep frames fit in all my hives (ex. A Nuc’s Observation hive n standard deep hives bodies).
. So if your frames are extending below the brood box the frames are too deep ( more 9 5/8") or your brood hive is cut wrong … Also the hanger lip inside in your hive body could have been cut too allowing the frames to extend below the hive bottom. Look n measure ! The frame should suspension about one bee space below the top of the hive body. This Obs hive it is flush but most are approx 3/8" below like in next photo below.
. I hope I am making sense for you to see n understand. Good luck n happy beekeeping …