Cytoplasmic dynein is the motor protein responsible for the intracellular transport of various organelles and other cargoes toward microtubule minus ends. However, it remains to be determined how dynein is regulated to accomplish its varied roles. The dynein complex contains six subunits, including three classes of light chains. The two isoforms of the DYNLT (Tctex1) family of light chains, DYNLT1 and DYNLT3, have been proposed to link dynein to specific cargoes. However, no specific binding partner had been found for the DYNLT3 light chain. We find that DYNLT3 binds to Bub3, a spindle checkpoint protein.Bub3 binds exclusively to DYNLT3 and not to the other dynein light chains. Glutathione S-transferase pull-down and co-immunoprecipitation assays demonstrate that Bub3 interacts with the cytoplasmic dynein complex. DYNLT3 is present on kinetochores at prometaphase, but not later mitotic stages, demonstrating that this dynein light chain, like Bub3 and other checkpoint proteins, is depleted from the kinetochore during chromosome alignment. Knockdown of DYNLT3 with small interference RNA increases the mitotic index, in particular, the number of cells in prophase/prometaphase. These results demonstrate that dynein binds directly to a component of the spindle checkpoint complex through the DYNLT3 light chain. Thus, DYNLT3 contributes to dynein cargo binding specificity. These data also suggest that the subpopulation of dynein, containing the DYNLT3 light chain, may be important for chromosome congression, in addition to having a role in the transport of checkpoint proteins from the kinetochore to the spindle pole.Cytoplasmic dynein 1 is a large multisubunit ATPase that moves toward the minus ends of microtubules. It is involved in multiple important cellular processes, including mitosis, nuclear migration, Golgi and centrosome localization, organelle transport, and viral transport (1, 2). This dynein complex has a molecular mass greater than 1 MDa and contains two identical heavy chains, each containing motor domains that generate the force necessary to move along the microtubule (3-5). The cytoplasmic dynein cargo binding domain consists of five subunits that assemble into the complex as dimers: the intermediate chain, light intermediate chain, and three classes of light chains; DYNLL, DYNLT, and DYNLRB.2 There are at least two isoforms of each of these five subunits (6). The DYNLT light chain family has two members, DYNLT1 (previously called Tctex1) and DYNLT3 (previously called rp3) (2, 7-9). The two family members share ϳ55% amino acid identity. Both light chains are expressed in all the cells and tissues so far examined, and they incorporate into dynein complexes as homodimers (7,10).3 Thus, a dynein complex contains either DYNLT1 or DYNLT3 but not both.While the dynactin complex is responsible for binding dynein to many cargoes, there is increasing evidence that the isoforms of cargo binding subunits are important in binding dynein to specific cargoes (reviewed in Ref. 1). DYNLT1 has been shown to specifically ...