There are two tabs in your Inventory and they are used for different purposes:
Here you can find all your quest items, zeppelin cargoes, extra resources and bonus chests. Note that the capacity of your Inventory is unlimited. All items you have found or received go to the Inventory automatically.
You can use this tab for your buildings only. To place a building there, tap the button with a hand depicted on it, choose the icon with a box and then press the object you want to move to the Storage.
There are two storage spaces and you can open new ones with gems. In case there are some buildings in your Storage, you can take them out only on the island where the structures were originally built. At the moment there is no opportunity to transfer buildings between islands via the Storage.
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