To understand natural or social phenomena, we need various information, knowledge, and thought skills. In this context, mathematics and sciences provide us with excellent tools for that purpose. This explains the reasons why there is always significant emphasis on mathematics and sciences in school education; some of the general goals in school education today are to illustrate physical phenomena with mathematical tools based on scientific consideration, to encourage students understand the mathematical concepts implied in the phenomena, and provide them with ability to apply what they learned to the real world problems. For the mentioned goals, we extract six fundamental principles for the integrated mathematics and science education (IMSE) from literature review and suggest a instructional design model. This model forms a fundamental of a case study we performed to which the IMSE was applied and tested to collect insights for design and practice. The case study was done for 10 students (2 female students, 8 male ones) at a coeducational high school in Seoul, the first semester 2009. Educational tools including graphic calculator(Voyage200) and motion detector (CBR) were utilized in the class. The analysis result for the class show that the students have successfully developed various mathematical concepts including the rate of change, the instantaneous rate of change, and derivatives based on the physical concepts like velocity, accelerate, etc. In the class, they described the physical phenomena with mathematical expressions and understood the motion of objects based on the idea of derivatives. From this result, we conclude that the IMSE builds integrated knowledge for the students in a positive way.