Although its origin has not yet reached a consensus so far, MTS (Molar-Tooth Structure) has been documented for more than 100 years. Current study reports a discovery of MTS from the Mesoproterozoic Wumishan Formation, Lingyuan, Yanshan Region, North China, and the features and geological implications of MTS are further discussed. Here, straitigraphic horizons of MTS’s occurrences show that it was mainly located within the top part of the Wumishan Formation, i.e., limestone unit. Four kinds of morphology of MTS, i.e., fine fusiform, debris, ribbon, ptigmatic and nodular (irregular), were recognized and thought to be highly related to the sedimentary environments and facies. Geochemistry of MTS including oxides, trace elements and C, O and Sr isotopes indicates that the horizons of MTS-bearing is of higher Sr/Ba and Ca/Mg ratios, lower positive δ13C and highly negative δ18O values than the adjacent stratigraphic levels of rare MTS. Lithology, morphology and geochemistry of MTS in the Wumishan Formation suggest that MTS occurs mainly in shallow subtidal near the storm wave base, which is typically characterized by warm temperature, oversaturated calcium carbonate seawater and high organic productivity. Furthermore, occasional enrichment of algae bacteria here is more favorable for the calcification of calcium oozes and catalytic for MTS. C isotope composition of the Wumishan Formation and MTS of this study is well correlated with that of the Mesoproterozoic Belt Supergroup, North America and Riphean, Siberia, suggesting that MTS acts as a sedimentary record responding to global changes and is a perfect indicator in Precambrian stratigraphic correlation worldwide.