Prof. Neupert has also been honoured with numerous prize awards from other quarters, and his expertise has rewarded him with membership of key national and international scientific bodies. From 1995 to 1997 he was President of the Society for Biochemistry and Molecular Biology, and from 1997 to 2000 Chairman of the European Molecular Biology Council. As a mentor for coming generations of researchers, he passed on his knowledge as a university professor in Göttingen and Munich, most recently – until the year 2010 – as Professor for Physiological Chemistry at the Ludwig Maximilian University in Munich. 

Since 2008 he has been in charge at the Max Planck Institute for Biochemistry for the research group “Structure and Functions of Mitochondria”, carrying out research on the molecular bases of the complex mitochondrial architecture and its dynamics.For his pioneering contributions towards resolving the biogenesis of mitochondria, the Jung Foundation for Science and Research distinguished Prof. Dr med. Dr rer. nat. Dr. h. c. mult. Walter Neupert by awarding him the Ernst Jung Medal for Medicine in Gold in 2015.