When the Model Driven Development (MDD) method is used in real-time field, it is difficult to describe the whole control system in a single layer completely and clearly. A real-time multi-layer modeling method based on hierarchy theory was presented in this study. The extensible input port and output port were adopted to equip present meta-model technique in real-time field, then the eXtensible Markup Language (XML) was used to describe the ports and the message transfer mechanism based on channel was applied to realize communication between models in mutiple layers. The modeling results for real-time control system show that compared with single layer modeling method, the hierarchical modeling method can effectively support the description of parallel interactions between multiple tasks when using model driven development method in real-time field, as a result it enhances the visibility and reusability of real-time complex system models.