The COVID-19 pandemic affected a large range of in-person education activities in Colombia. This created great limitations in academic performance for students with reduced access to communication technologies and deepened the educational gaps in the country. This was particularly true for sciences such as biochemistry. In Colombia, molecular structure is a subject traditionally taught through 2D drawings and static diagrams because software and 3D artifacts are not available to all students. Thus, it is essential to develop and apply strategies to study molecular structure; especially tools that are accessible and can be easily built and used at home in rural areas of the country. Here, we propose the use of origami as a tool to teach molecular structure to second year college students in Colombia. We describe the development and the implementation of the tool adjusted to students' needs regarding their visual, tactile, and other experiential learning. We included serious game elements during the implementation to engage participation and teamwork. Students' perception about the use and utility of origami to study molecular structure was favorable, highlighting its simplicity and powerfulness to help them grasp key concepts in chemistry. This motivates us to propose this idea to explore and continue improving the strategy in the classroom.