You would still enter these as estimated tax payments as these are are payments you made to go toward your 2016 federal tax liability (even without the official Form 1040-ES). You can use the search feature in the top right hand corner of your screen and searching for "estimated tax payments" and click the "jump to" link. This will bring you right to the appropriate section. Align your payments to whatever quarter they were made in. I would also recommend keeping a copy of the payment (i.e bank statement) handy just in case there is any question by the IRS.
You can also find the section by clicking on the following tabs:
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Federal Taxes
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Deductions and Credits
- You may have to click "Show All" or Check for More credits to get full list to appear
- Scroll down to Estimates and Other Taxes Paid
- Scroll down to Estimates, click Start/Update/Revisit to the right of this category (see screenshot below)
- Enter your 2016 Paid Estimated Taxes