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This current study aims to analyse students' perceptions regarding implementing project-based learning (PjBL) in teaching a molecular biology course to second-year pharmacy students at King Abdulaziz University as a sort of active student-centred learning method. Sixty-five male and 90 female students were enrolled in this study. This research used survey instruments to assess learners' perceptions. The survey was divided into four sections that consisted of closed-ended questions to evaluate students' overall perceptions of PjBL, communication skills, project management and teamwork activity during their project management process. A 5-point Likert scale was used. Regarding overall learning and students' satisfaction with the PjBL experience, the percentage was 72.73%, with a score of 21.82 over 30. The percentage of students' perceptions towards the improvement of their communication skills was 60.98%, with a score of 15.25 over 25. The percentage of students' perceptions of project management skills was 64.97%, with a score of 12.99 over 20. Finally, regarding teamwork, the survey revealed a percentage of 71.81%, with a score of 43.08 over 60. There was a positive correlation between students' perceptions of the questionnaire's four parts and their grade point average (GPA) in the molecular biology course. It can be concluded that PjBL is an effective tool in the active-learning process. PjBL can improve students' communication and management skills. Also, it encourages teamwork activities between students. [ABSTRACT FROM AUTHOR]