You need to pay the khoms of what remains from your earnings after all your expenses, including the said taxes.
You do not need to pay zakat, because zakat is paid against certain materials, which you do not have.
Khoms is Islamic payment, that has no relation to the governmental taxes.
Governmental taxes are considered part of your expenses.
Hence, if after all your expenses, you left with nothing, then you do not need to pay khoms.