Forget the conduit for a moment, what do you do with them at the floorbox? If the box and conduit are in the pour you would normally connect the conduit to the box KO. (Keep in mind that you cannot embed the MC or CAT5 in the concrete.) You could "sleeve" the MC but there would not be the required MC connector at the box. You could do a "transition" fitting at the other end and remove the armor for the portion in the conduit.
BUT if you do that how do you get the CAT5 into the conduit? Keep in mind also that the class 1 conductors and the LV have to be in separate sections of the box, The CAT5 cannot pass through the class 1 section nor can it be in the conduit with the MC conductors.
Unless I'm missing something with the box you are using the correct way to do this is with two conduit runs, one for the LV and the other for the class 1 to the separate box sections. Run individual THWN conductors to the box for the class 1. Put a box on the end of the conduit and splice to the MC out of the floor however appropriate.
-Hal