Before you can deposit a payment you received, you need to record it. If you recorded a payment you received on an invoice or created a sales receipt, make sure you selected Undeposited funds in the Deposit to field of the transaction. What are undeposited funds?
All items in a deposit need to be in the same currency. If you use multicurrency, you will only see payments for one currency at a time. Select a currency to see the payments you can include in the deposit.