Your individual tax liability must be paid from your personal bank account—not your business account. Even though you own an S Corp, your personal income taxes are separate from your business. Think of it like the separation between church and state: personal taxes from personal accounts, business taxes from business accounts.
This is because your S Corp is a flow-through entity at the federal level, meaning profits flow through to you personally. The federal tax you owe is your individual liability, not your business's liability.
If you need funds from your business account to cover this payment, transfer the amount from your business account to your personal account first, then make the payment from your personal account.
Make your Federal balance due payment here
Apply Payment to “Balance Due”
Select which Tax Period for Payment
Click “Continue” then a window will appear to verify your selection then select “Continue”
Tax Year for Verification, enter the last tax return year the IRS has on file. Please note: This is not the payment year and if you recently filed your tax return then select the year before as the IRS may not have the most recent return on file yet
Enter the filing status you filed for that tax year
Enter your name, social security number, date of birth, and address that matches the tax year you selected for verification
Check the box for “I accept the Privacy Act and Paperwork Reduction Act.” then select “Continue”
Enter your payment amount and payment date
Enter your bank information and type of account
Check the box for “I would like to receive email confirmation notification and agree to the Email Terms of Service.” then enter your email address and select “Continue”
Review that the information is accurate then select “Submit."
Disclaimer: The information contained in this document is provided for informational purposes only and should not be construed as financial or tax advice. It is not intended to be a substitute for obtaining accounting or other financial advice from an appropriate financial adviser or for the purpose of avoiding U.S. Federal, state or local tax payments and penalties.