If you use two holes, you can get a properly sized rubber grommet for each hole. Grommets are sized according to three dimensions:
1. The diameter of the drilled hole
2. The diameter of the cable (matches the diameter of the hole in the grommet)
3. The thickness of the material into which the grommet is installed
So, by using two holes and properly sized grommets, everything will be perfect. But yes, you can get by with less than perfect by using a single larger hole. But if you do, it is still important to get the properly sized grommet based on each of the three dimensions. If the grommet is improperly sized and were to fall out, the edge of the sheetmetal would likely saw through your cables.
If you cannot redo it using two holes, make certain that you protect the cables from any possibility of abrasion as the van vibrates, rattles and shakes down the road for years to come.