We describe a novel protein, Syne-1, that is associated with nuclear envelopes in skeletal, cardiac, and smooth muscle cells. Syne-1 contains multiple spectrin repeats similar to those found in dystrophin and utrophin, as well as a domain homologous to the carboxyl-terminal of Klarsicht, a protein associated with nuclei and required for a subset of nuclear migrations in Drosophila. In adult skeletal muscle fibers, levels of Syne-1 are highest in the nuclei that lie beneath the postsynaptic membrane at the neuromuscular junction. These nuclei are transcriptionally specialized, expressing genes for synaptic components at higher levels than extrasynaptic nuclei in the same cytoplasm. Syne-1 is the first protein found to be selectively associated with synaptic nuclei. Syne-1 becomes concentrated in synaptic nuclei postnatally. It remains synaptically enriched following denervation or degeneration/regeneration, and is also present at high levels in the central nuclei of dystrophic myotubes. The location and structure of Syne-1 suggest that it may participate in the migration of myonuclei in myotubes and/or their anchoring at the postsynaptic apparatus. Finally, we identify a homologous gene, syne-2, that is expressed in an overlapping but distinct pattern.Skeletal muscle fibers are syncytial; in most mammalian skeletal muscles, each fiber contains several hundred myonuclei. Of these, a few are located beneath the postsynaptic membrane at the neuromuscular junction (NMJ).1 Synaptic nuclei are specialized in several respects. First, multiple nuclei (generally 3-8) are invariably associated with synaptic sites. Because Ͻ1% of the muscle fiber surface is synaptic, one would expect only a minority of synaptic sites to be associated with even a single nucleus if nuclear distribution were random. Second, most nuclei are well separated from their neighbors, but synaptic nuclei occur in tight clusters. Third, synaptic nuclei are larger and rounder than extrasynaptic nuclei (1-3).Finally, synaptic nuclei are transcriptionally specialized; they express genes for several synaptic proteins, including subunits of the acetylcholine receptor (AChR), at levels far higher than those of extrasynaptic nuclei in the same cytoplasm (4 -6). As a result, mRNAs for synaptic proteins are concentrated in synaptic areas, allowing local synthesis of synaptic constituents. This local synthesis has been of considerable interest to neurobiologists, because it contributes to postsynaptic differentiation, and because it may serve as a model for central synapses, in which some components of dendritic spines are thought to be synthesized within the spine itself (7).The formation of the postsynaptic apparatus, including the accumulation and specialization of synaptic nuclei, is controlled by the nerve. One critical nerve-derived signal is the proteoglycan agrin which is required for all aspects of postsynaptic differentiation, including transcriptional specialization of synaptic nuclei (8 -10). A critical component of the agrin receptor is the muscle-sp...