I am self employed filing as an s corporation with w2 to myself; I paid estimated tax but how do i pay self employment tax

I paid in an estimate tax for federal and state and paid myself with a w2; since it is a pass through (S corp), I think I only need to report the money earned through the w2 but I don't know if I should put the estimated tax under business  or within the w2. Right now I have it calculated on the w2, but then it looks like the business didn't make any money since I only list the deductions (income under the w2)., and I don't know if I am calculating self employment correctly.