Neurabin and spinophilin are neuronal scaffolding proteins that play important roles in the regulation of synaptic transmission through their ability to target protein phosphatase 1 (PP1) to dendritic spines where PP1 dephosphorylates and inactivates glutamate receptors. However, thus far, it is still unknown how neurabin and spinophilin themselves are targeted to these membrane receptors. Spinophilin and neurabin contain a single PDZ domain, a common protein-protein interaction recognition motif, which are 86% identical in sequence. We report the structures of both the neurabin and spinophilin PDZ domains determined using biomolecular NMR spectroscopy. These proteins form the canonical PDZ domain fold. However, despite their high degree of sequence identity, there are distinct and significant structural differences between them, especially between the peptide binding pockets. Using two-dimensional 1 H-15 N HSQC NMR analysis, we demonstrate that C-terminal peptide ligands derived from glutamatergic AMPA and NMDA receptors and cytosolic proteins directly and differentially bind spinophilin and neurabin PDZ domains. This peptide binding data also allowed us to classify the neurabin and spinophilin PDZ domains as the first identified neuronal hybrid class V PDZ domains, which are capable of binding both class I and II peptides. Finally, the ability to bind to glutamate receptor subunits suggests that the PDZ domains of neurabin and spinophilin are important for targeting PP1 to C-terminal phosphorylation sites in AMPA and NMDA receptor subunits.Neurabin (1) and spinophilin (2-4) are neuronal scaffolding proteins that play important roles in synaptic transmission and synaptic plasticity (5, 6). Neurabin and spinophilin are highly enriched in dendritic spines, the site of excitatory neurotransmission. Neurabin is expressed almost exclusively in neuronal cells, while spinophilin is expressed ubiquitously, although it is highly enriched in neurons. Because spinophilin is a ubiquitous isoform of neurabin, it is sometimes termed neurabin II (3). Neurabin consists of 1095 residues (MW ) 122 730 Da), while spinophilin is smaller, consisting of only 817 residues (MW ) 89 640 Da). Figure 1a shows a domain representation for both proteins. As is typical for scaffolding proteins, both proteins contain multiple protein interaction domains. Both neurabin and spinophilin contain an F-actin binding, a PP1-binding, a PDZ, and a C-terminal coiled-coil domain. In addition, neurabin, but not spinophilin [in vertebrates (7)], contains a sterile R motif (SAM) domain in its C-terminus, while spinophilin, but not neurabin, is proposed to have a dopamine receptor-R-adrenergic interacting domain in its N-terminus, possibly between spinophilin residues 200 and 400 (8, 9). The highest level of primary sequence identity between neurabin and spinophilin is found in the PDZ domains (86%), the protein phosphatase 1 (PP1) binding domains (81%), and the coiled-coil domains (63%).Both neurabin and spinophilin have a central role in signali...