How to pay taxes on your small business. Small businesses may have to pay a variety of federal and state or local taxes. Avoid harsh penalties by learning how to pay them. You will need estimated tax payments, an income tax return, excise tax payments, employment tax payments, sales tax payments, and state and local tax payments. Optional self-employment tax payments. Step one: Make quarterly estimated tax payments to the IRS if your total tax bill in a given year will exceed $500. Estimated tax payments are due four times a year on April 15, June 15, September 15th, and January 15. Pay self-employment tax if your annual net earnings will be $400 or more. Step 2: File an annual income tax return. The form you use will depend on how your business is organized, whether it is a sole proprietorship, partnership, corporation, or limited liability corporation. Keep tax-related documents for a minimum of 7 years. Step 3: Pay excise tax if your business engages in qualified activities. For example, excise taxes are levied on certain trucks and buses that use some public highways. Step 4: Withhold employment taxes from the salaries of your employees. Employment taxes include withholding, employer matching, and unemployment taxes. Depending on the size of your payroll, employment taxes are due weekly, monthly, or quarterly. Step 5: Register with your state's tax department and pay sales tax if your business makes a taxable product. Sales taxes are due quarterly or monthly, depending on the rules in your state. Most services are exempt from paying sales taxes. Step 6: Pay additional state and local taxes that are applicable to your business. Consult your local government offices or a tax attorney to determine whether you are responsible for additional taxes. Did you know that in 2008, tax revenues in the United States represented 26.9% of...