This research work is based on making a prototype e-commerce system applying the scrum methodology, becausecurrently the systems of many organizations are still developed following traditional methodologies, i.e. the system does not meet the requirements that should provide value to the organization in addition to its poor information security, leading to the organization's data to the vulnerability of loss or theft. That is why this article aims to design a web system for organizations dedicated to e-commerce under the agile SCRUM methodology. The methodology allowed to design the prototype meeting the needs of the organization with frequent retrospectives and continuous communication between stakeholders, in addition to proposing the information security of the company's data. In the results of this research the user stories were analyzed, which allowed the division into 4 Sprint deliverables of the general modules proposed in the article, for which a maximum score of 21 story points per Sprint was placed; in which 16 story points were placed to the first sprint, the second Sprint with 20 story points, the third Sprint with 21 story points and the fourth Sprint with 16 story points. The e-commerce system proposal will be beneficial for the organization and its customers, since it will allow them to have a system according to their requirements and needs in a secure manner.