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This study is part of the context of the Research Project signed between the Ministry of Agriculture, Livestock and Supply (MAPA) and the Federal Institute of Education, Science and Technology Goiano (IF Goiano) for the development of methodologies with a view to implement and operate an agreement monitoring center. Its objective is to present the tool (software) developed via web to organize the structure of the chain of value of the Ministry of Agriculture's system of agreements, map performance indicators and classify process optimization priorities, based on parameters of efficiency and effectiveness of the reengineering processes. This is applied research in the empirical scenario of the Agreements Sector of MAPA, which uses the case study procedure to achieve its objective. The software development is based on the theoretical framework of Business Process Management (BPM) and Lean Six Sigma, with the application of the GUT Matrix tool and the Eisenhower Matrix for decision making. The primary data were collected through unstructured interviews with nine key informants working in the macro-processes of formalization, execution and monitoring and rendering of accounts of agreements. The results contain the characterization of the MAPA agreement area, highlighting the main activities carried out in the three macroprocesses, the description of the modelling characteristics and functionalities of the developed software and the discussion of benefits arising from the application of information technologies to the Business Process Management (BPM). It can be inferred that the Lean methodology is plausible as a logical “production line”, since it is adaptable to a structured algorithm, which provides an orderly solution of problems focused on continuous improvement.