(A, E, I) Positioning of the Ccdc96/Ccdc113 complex within the 96-nm repeat of WT cilia. (B, F, J) Detailed isosurface rendering of Ccdc96/Ccdc113 complex connections in the WT structure. (B) The wild-type structure of the Ccdc96/Ccdc113 complex shows three connections to protofilament A5 (MT1-MT3), one to the base of IDA g (IDAg1) and two connections to the N-DRC proximal lobe (NDRC1, NDRC2). (C, D) Remnant densities in the corresponding area in both mutant structures show only connections to MT1, NDRC2 and IDAg1. (F) Another view of the wild-type structure of the Ccdc96/Ccdc113 complex shows four connections to the N-DRC (NDRC1-NDRC4), two connections to the base of IDA g (IDAg1, IDAg2), one connection to the protofilament A3 (MT4), and one connection to the base of the radial spoke 3 (RS3). (G, H) Remnant densities in the corresponding area present in both mutant structures show only connections with NDRC2 and IDAg1. (J) View of the base of RS3 in the wild-type structure shows a connection to the basal part of N-DRC (NDRC4), two connections to protofilaments A2 and A3 (MT5, MT6) and a connection to the base of RS3. (K, L) Remnant densities in the corresponding area present in both mutant structures show a completely missing structure in this area.