| Interaction Partner | Binding Domain on IFT46 | Organism Studied | Functional Role of Interaction | Key Reference |
|---|---|---|---|---|
| IFT52 | C-terminal domain of IFT46; hydrophobic interface, including residues around L285/L286 important for recruitment | *Chlamydomonas reinhardtii*; human/cross-species IFT studies | Direct IFT46-IFT52 binding supports IFT-B1 core complex assembly and recruits IFT46 to the basal body/ciliary base before train assembly (pqac-00000010, pqac-00000011, pqac-00000012, pqac-00000013, pqac-00000017) | Lv et al., 2017; Taschner & Lorentzen, 2016 (pqac-00000010, pqac-00000017, pqac-00000023) |
| IFT88 | No independent IFT46-only binding domain resolved here; interacts as part of an IFT46-IFT52-IFT88 ternary core complex | *Chlamydomonas reinhardtii* | Stabilizes the IFT-B core architecture; IFT46, IFT52, and IFT88 form a direct ternary complex essential for core IFT-B complex integrity (pqac-00000015, pqac-00000016, pqac-00000024) | Lucker et al., 2010 (pqac-00000015, pqac-00000024) |
| ODA16/DAW1 | N-terminal domain of IFT46, especially aa 1-147 in *Chlamydomonas*; not clearly conserved in human DAW1-IFT46 binding | *Chlamydomonas reinhardtii*; comparative human studies | Cargo-adapter interaction for outer dynein arm (ODA) transport into cilia/flagella; truncation of the IFT46 N-terminus impairs ODA transport and causes axonemes lacking most ODAs (pqac-00000002, pqac-00000003, pqac-00000004, pqac-00000027, pqac-00000028) | Lechtreck, 2022; Wang et al., 2020; Nakayama & Katoh, 2018 (pqac-00000002, pqac-00000004, pqac-00000027) |
| ARL13B | Indirectly via the IFT46-IFT56 dimer/subcomplex rather than a mapped standalone IFT46 motif | human; *Caenorhabditis elegans* | Supports ciliary membrane protein localization/retention and ciliary trafficking regulation; ARL13B/ARL-13 associates with IFT-B through IFT46-IFT56, and dyf-6/IFT46 affects ARL-13 compartmentalization in worm cilia (pqac-00000034, pqac-00000035, pqac-00000037, pqac-00000039, pqac-00000041) | Cevik et al., 2013; Nozaki et al., 2017 (pqac-00000034, pqac-00000037, pqac-00000038) |
| IFT81/IFT74 | Via higher-order IFT-B core interactions; IFT46 pairs with IFT52, which associates with the IFT81/IFT74 module during core assembly | Multiple organisms | Promotes IFT-B core complex formation; IFT46-IFT52 associates with IFT81/IFT74 to build the core scaffold that underlies anterograde IFT train assembly (pqac-00000012, pqac-00000021, pqac-00000022, pqac-00000023, pqac-00000024) | Taschner & Lorentzen, 2016; Nakayama & Katoh, 2018; Lucker et al., 2010 (pqac-00000022, pqac-00000023, pqac-00000024) |


*Table: This table summarizes the main known DYF-6/IFT46 interaction partners, the mapped or inferred IFT46 binding regions, and the functional significance of each interaction in IFT-B assembly, cargo transport, and ciliary localization.*