The purpose of this paper is to analyze a series of factors that affects innovation and demonstrate that innovation are positively related to performance during business process integration and re-engineering based on e-commerce. According to prior research, the paper develops a number of testable hypotheses. It examines how trust, coordination, process innovation influence improvements in performance. The paper uses structural equations modeling and empirically tests these hypotheses using a sample of 218 Chinese organizations. The findings consider that coordination plays a mediating role between trust and process innovation and process innovation plays a mediating role between coordination and organizational performance. Finally, implications for researchers and practitioners are presented.