Materials with low thermal conductivity have received significant attention across various research fields, including thermal insulation materials, thermal barrier coatings, and thermoelectric materials. Exploring novel materials with intrinsically low thermal conductivity and investigating their phonon transport properties, chemical bonding, and atomic coordination are crucial. In this study, a novel ternary sulfide is successfully discovered, Cu2ZrS3, which is achieved by introducing copper ions into both the interlayer and intralayer of ZrS2. The resulting structure encompasses various coordination forms within each layer, such as [CuS4], [ZrS6], and [CuS3], leading to pronounced phonon anharmonicity induced by the asymmetric bonding of tri‐coordinated Cu atoms within the [ZrS6] layer. As a result, Cu2ZrS3 exhibits intrinsically low lattice thermal conductivity (κL) of about 0.83 W m−1 K−1 at 300 K and 0.35 W m−1 K−1 at 683 K, which are in the exceptionally low level among sulfides. In comparison to the conventional approach of inserting guests between layers, the substitution of atoms within layers provides a novel and effective strategy for designing low κL materials in transition metal dichalcogenides (TMDCs).