@Hatofftoya,
If what you stated was really true, there are a lot of single-phase 480v Pri to 120/240 1ph3w secondary transformer manufactures who would be real upset. The most common transformer connection in the US is derived from a single-phase utility transformer connected to one (your one primary bushing) or two phases of a three-phase system depending on the distribution system, to derive 120/240 single-phase for residential. In small commercial the use of either 480V or 240V primary to 120/240 1ph3w is common. Although when 480/277 3ph4w is used, the 120V is most often derived using three-phase 480 to 208/120 3ph4w Y. I assume the poster's transformer is not a utility transformer and that he/she is working with a three-phase system within a building.