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n-Alkane isomerization is a critical reaction that can affect parameters in oil refining, such as the gasoline octane number and diesel oil solidifying point. In this study, a catalyst support, mordenite (MOR)/silicoaluminophosphate (SAPO)-11 composite zeolite with core/shell structure, was synthesized by hydrothermal method with MOR acting as the seed for crystallization. The crystal structure, elemental composition, surface area, pore volume, and acidity of the catalyst was thoroughly characterized. In addition, the catalytic performance of the as-obtained Pt/MOR/SAPO-11 in the hydroisomerization of n-dodecane was tested. The results indicated that the properties and catalytic performance of the composite molecular sieve were quite different from those of the pure zeolites and physical mixture of MOR and SAPO-11 (MOR+SAPO-11). Compared with the physical mixture, MOR and SAPO-11 were more tightly bound in MOR/SAPO-11 because of chemical bonding. Moreover, the acidity and pore structure were favorable to the catalytic hydroisomerization of n-dodecane. Pt/MOR/SAPO-11 exhibited higher isomerization activity than the Pt-loaded pristine MOR and MOR+SAPO-11. Thus, the core-shell composite molecular sieve has promising industrial applications as the catalyst support.