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What happened when you got the prompt about the $515, did you go through the Other Tax Situations / Underpayment Penalty section and opt for the IRS to bill you later (see example below)

Either way, the outcome is IRS calculated it for you which is a valid option, it doesn't need to be on your 1040 and you will not be penalized as long as pay the IRS by the date in the letter.

From 1040 instructions:
https://www.irs.gov/pub/irs-pdf/i1040gi.pdf

Because Form 2210 is complicated, you can leave line 38 blank and the IRS will figure the penalty and send you a bill. We won’t charge you interest on the penalty if you pay by the date specified on the bill.