Was the fee suppose to come out of your refund but they took it from your bank account?
If the IRS is taking too long to send your refund and still holding your refund 36 days after your original estimated refund date they will ask you to pay the fees or they will debit your bank account. See, What happens if the IRS reduces my refund.
https://ttlc.intuit.com/community/payments/help/what-if-my-federal-refund-isn-t-enough-to-cover-my-t...
And see,
https://ttlc.intuit.com/community/charges-and-fees/help/why-was-my-bank-account-auto-debited-for-tur...
