Short answer yes
First, have a good CPA to assist you with all the financial details.
Secondly, yes, you take a check or 'drawings' (usually referred to as officers drawings.)
Taxes are paid against the total of those drawings, although, being a sub-S corp all officers receive a schedule K-1 (like a 1099, gives a total amount that the officers drew, if the corporation operates at a loss, then it is a negative amount and goes against any taxes paid by the officer in other investments or other tax liabilities) so it can either raise or lower ones taxable income.
Ultimately what you should do is run everything through the corporation, the officers 'loan' money to the company at times for it to operate and likewise the officers receive checks as income. The officers loans and drawings become like a slush fund that the CPA uses to raise/reduce the officers overall tax liability since the S corp 'passes through' any tax liabilities or losses to the officers, relative to the percentage that each officer holds in stock (or ownership.)
A 'C' corp operates totally differently and is generally more appropriate for much larger income entities. An LLC is another option, although here in CA the state licensing board will not license an LLC. Additionally, the LLC does not have the track record (about 20 years versus over something like 200 years) in the US (and English) court system so there is an imense amount of legal precedence for the Corporation structure.
Hopefully I did not overwhelm you-