You didn't pay the tax, you had tax withheld, just like W-2 withholding that will be applied now to pay the tax.

You are REPORTING the taxable amount and the amount of tax withheld. If there is a difference between the two you will either owe additional tax or it will be applied to your refund.

The actual tax depends on your other income and margional tax bracket. If not enough tax was withheld, you will owe more.

The box 4 (or box 14 state) withholding will be added to all other withholding, such as W-2 withholding, and be shown on line 25 on the 1040 form to offset your overall tax liability. If you are not 59 1/2 or older the there will be an additional 10% early withdrawal penalty.

Enter a 1099-R here:

Federal Taxes,
Wages & Income
I’ll choose what I work on (if that screen comes up),
Retirement Plans & Social Security,
IRA, 401(k), Pension Plan Withdrawals (1099-R).

OR Use the "Tools" menu (if online version under My Account) and then "Search Topics" for "1099-R" which will take you to the same place.

Be sure to choose which spouse the 1099-R is for if this is a joint tax return.
Be sure to pick the correct 1099-R type: Standard 1099-R, CSA-1099-R, CSF-1099-R, RRB-1099-R.

[NOTE: When you get to the "Your 1099-R Entries" screen where you can add another 1099-R, use "continue" to keep going as there are additional interview questions after that screen in most cases. You can always return as shown above.]

Thanks, I’d entered the data of the 1099R and had gone through all the subsequent questions. The final page indicated that I would be taxed the additional 10% for the early distribution, which I voluntarily withheld from the second distribution. The amount shown on the screen is 10% of the total distribution although I already voluntary withheld some of that amount. 

Ooo, got it. Jumped the gun. That screen stopped me in my tracks. Thanks for your help.