Although cytotoxicity of inorganic metals has been well investigated, little is known about the cytotoxicity of organic-inorganic hybrid molecules. The cytotoxicity of zinc complexes was evaluated using a culture system of vascular endothelial cells. We found that bis(1,4-dihydro-2-methyl-1-phenyl-4-thioxo-3-pyridiolato)zinc(II), termed Zn-06, exhibited strong cytotoxicity in vascular smooth muscle cells, epithelial cells, fibroblastic cells, and vascular endothelial cells. This study showed that the tetracoordinate structure of the Zn-06 molecule, which contains two sulfur and two oxygen atoms attached to the zinc atom, facilitated its accumulation within vascular endothelial cells whereas the whole structure of the zinc complex was involved in its cytotoxicity in the cells. The present data suggest that a part of the structure, especially the binding site of the metal atom, was responsible for accumulation of zinc complexes, and the entire structure is responsible for their cytotoxicity in vascular endothelial cells. Recently, we have proposed bio-organometallics, a research strategy in biology that uses organic-inorganic hybrid molecules, as a tool to analyze biological systems (Fujie et al., 2016a). This research strategy succeeded in revealing the intracellular signal transduction of metallothionein induction (Fujie et al., 2016b) and that of syndecan-4 expression (Hara et al.,