Okay, I see now that the crates are used in order to re open the vaults.
Then I think that the crates should be opened when you type in the password. Because it was not clear to me that that is what the crates were being used for.
But when it comes to moving the gems downward. Yes, you can tap on the main part to move the gems downward, but once you are able to move the gems around all directions, I expect to be able to move the gems downward the same way. It isn't super clear that you are supposed to tap on the main part to move them downwards as the actual way to move them.