What payments? Did you set up a payment plan directly with the IRS? I hope you are not using any quarterly payment slips that printed out from Turbo Tax. Those are 1040ES estimate slips for estimated payments towards Next year 2017 return and weren't for your 2016 tax due.
Why did you amend? What box didn't you check? Did you have a refund on the 1040X you mailed. Amended returns can only be mailed. It can take them 16 weeks for the IRS to process them. And they only mail checks for refunds. After 3 weeks you can track it here, <a rel="nofollow" target="_blank" href="
https://www.irs.gov/filing/individuals/amended-returns-form-1040-x-/wheres-my-amended-return-1">http...>
