Being that DS9 is a Bajoran station and Starfleet are there at the invitation of Bajor, the Starfleet command structure would not apply. Who does what and who has what authority would be a matter of diplomacy, which is to say by whatever written agreement Starfleet has with Bajor. Consequently, DS9 would be structured and managed more like NATO or a UN peace keeping mission. It would explicitly be different from other Starfleet missions, at it would evolve organically with the situation, thus be sui generis.