The type 1 inositol 1,4,5-trisphosphate receptor (IP 3 R1) is a tetrameric intracellular inositol 1,4,5-trisphosphate (IP 3 )-gated Ca 2؉ release channel (calculated molecular mass ؍ ϳ313 kDa/subunit). We studied structural and functional coupling in this protein complex by limited (controlled) trypsinization of membrane fractions from mouse cerebellum, the predominant site for IP 3 R1. Mouse IP 3 R1 (mIP 3 R1) was trypsinized into five major fragments (I-V) that were positioned on the entire mIP 3 R1 sequence by immuno-probing with 11 site-specific antibodies and by micro-sequencing of the N termini. Four fragments I-IV were derived from the Nterminal cytoplasmic region where the IP 3 -binding region extended over two fragments I (40/37 kDa) and II (64 kDa). The C-terminal fragment V (91 kDa) included the membrane-spanning channel region. All five fragments were pelleted by centrifugation as were membrane proteins. Furthermore, after solubilizing with 1% Triton X-100, all were co-immunoprecipitated with the C terminus-specific monoclonal antibody that recognized only the fragment V. These data suggested that the native mIP 3 R1-channel is an assembly of four subunits, each of which is constituted by non-covalent interactions of five major, well folded structural components I-V that are not susceptible to attack by mild trypsinolysis. Ca 2؉ release experiments further revealed that even the completely fragmented mIP 3 R1 retained significant IP 3 -induced Ca 2؉ release activity. These data suggest that structural coupling among five split components conducts functional coupling for IP 3 -induced Ca 2؉ release, despite the loss of peptide linkages. We propose structural-functional coupling in the mIP 3 R1, that is neighboring coupling between components I and II for IP 3 binding and long-distant coupling between the IP 3 binding region and the channel region (component V) beyond trypsinized gaps for ligand gating.Extracellular stimuli can activate hydrolysis of phosphatidylinositol 4,5-bisphosphate, a component of the plasma membrane, the result being production of an intracellular second messenger, inositol 1,4,5-trisphosphate (IP 3 ) 1 (1). IP 3 diffuses into the cytoplasm and mediates the release of Ca 2ϩ from intracellular Ca 2ϩ storage organella, chiefly the endoplasmic reticulum, by binding to its receptor (IP 3 R). IP 3 R is a tetrameric intracellular IP 3 -gated Ca 2ϩ release channel (2). Molecular cloning has revealed that there are at least three distinct types of IP 3 R in mammals (3).The IP 3 R activity as well as protein are extremely enriched in cerebella (4 -8). The cloned cerebellar IP 3 R, now called type 1 IP 3 R (IP 3 R1), encodes an extraordinarily huge protein of 2749 amino acids (ϳ313 kDa) (9 -11) and has three regions (SI, SII, and SIII) that undergo alternative splicing (10,(12)(13)(14). The majority of IP 3 Rs expressed in the mouse cerebellum was IP 3 R1 (15, 16). The native IP 3 R1 forms largely a homo-tetramer in rodent cerebella (6, 17). Purified IP 3 R1 proteins showed a stoichiome...