Methyl 2-chloroquinazoline-6-carboxylate is primarily used in organic synthesis as a key intermediate in the production of various biologically active compounds. It plays a significant role in the development of pharmaceuticals, particularly in the synthesis of quinazoline derivatives, which are known for their potential therapeutic applications. These derivatives are often explored for their anticancer, antibacterial, and anti-inflammatory properties. Additionally, this compound is utilized in research laboratories for the design and optimization of new drug candidates, contributing to advancements in medicinal chemistry. Its reactive sites make it a versatile building block for constructing complex molecular structures in drug discovery processes.