Modern software systems are usually highly configurable, providing users with customized functionality through various configuration options. Understanding how system performance varies with different option combinations is important to determine optimal configurations that meet specific requirements. Due to the complex interactions among multiple options and the high cost of performance measurement under a huge configuration space, it is challenging to study how different configurations influence the system performance. To address these challenges, we propose HINNPerf , a novel hierarchical interaction neural network for performance prediction of configurable systems. HINNPerf employs the embedding method and hierarchic network blocks to model the complicated interplay between configuration options, which improves the prediction accuracy of the method. Besides, we devise a hierarchical regularization strategy to enhance the model robustness. Empirical results on 10 real-world configurable systems show that our method statistically significantly outperforms state-of-the-art approaches by achieving average 22.67% improvement in prediction accuracy. In addition, combined with the Integrated Gradients method, the designed hierarchical architecture provides some insights about the interaction complexity and the significance of configuration options, which might help users and developers better understand how the configurable system works and efficiently identify significant options affecting the performance.