{"uniprot":"Q6ZVC0","gene":"NYAP1","name":"Neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adapter 1","organism":"Homo sapiens (Human)","status":"dark","length":841,"sequence":"MNLLYRKTKLEWRQHKEEEAKRSSSKEVAPAGSAGPAAGQGPGVRVRDIASLRRSLRMGFMTMPASQEHTPHPCRSAMAPRSLSCHSVGSMDSVGGGPGGASGGLTEDSSTRRPPAKPRRHPSTKLSMVGPGSGAETPPSKKAGSQKPTPEGRESSRKVPPQKPRRSPNTQLSVSFDESCPPGPSPRGGNLPLQRLTRGSRVAGDPDVGAQEEPVYIEMVGDVFRGGGRSGGGLAGPPLGGGGPTPPAGADSDSEESEAIYEEMKYPLPEEAGEGRANGPPPLTATSPPQQPHALPPHAHRRPASALPSRRDGTPTKTTPCEIPPPFPNLLQHRPPLLAFPQAKSASRTPGDGVSRLPVLCHSKEPAGSTPAPQVPARERETPPPPPPPPAANLLLLGPSGRARSHSTPLPPQGSGQPRGERELPNSHSMICPKAAGAPAAPPAPAALLPGPPKDKAVSYTMVYSAVKVTTHSVLPAGPPLGAGEPKTEKEISVLHGMLCTSSRPPVPGKTSPHGGAMGAAAGVLHHRGCLASPHSLPDPTVGPLTPLWTYPATAAGLKRPPAYESLKAGGVLNKGCGVGAPSPMVKIQLQEQGTDGGAFASISCAHVIASAGTPEEEEEEVGAATFGAGWALQRKVLYGGRKAKELDKVEDGARAWNGSAEGPGKVEREDRGPGTSGIPVRSQGAEGLLARIHHGDRGGSRTALPIPCQTFPACHRNGDFTGGYRLGRSASTSGVRQVVLHTPRPCSQPRDALSQPHPALPLPLPLPPQPARERDGKLLEVIERKRCVCKEIKARHRPDRGLCKQESMPILPSWRRGPEPRKSGTPPCRRQHTVLWDTAI","function_summary":"A nucleoplasm-enriched neuronal adaptor that assembles signaling complexes controlling phosphoinositide 3-kinase pathways, Rho GTPase signaling, and adhesion dynamics. Its bipartite scaffold architecture concentrates binding partners through an extensive N-terminal platform and a C-terminal docking module, thereby tuning cytoskeletal and transcriptional programs. By organizing regulators of small GTPases, it enhances GTPase cycling and dampens cell adhesion, with a predominant nucleoplasmic pool coordinating nuclear-cytoplasmic signaling and a cytoplasmic fraction engaging membrane-proximal pathways.","plain_language":"NYAP1 has barely been studied. The model's best guess: A nucleoplasm-enriched neuronal adaptor that assembles signaling complexes controlling phosphoinositide 3-kinase pathways, Rho GTPase signaling, and adhesion dynamics. Its bipartite scaffold architecture concentrates binding partners through an extensive N-terminal platform and a C-terminal docking module, thereby tuning cytoskeletal and transcriptional programs.","uniprot_summary":"May be an adapter protein in a signaling pathway.","go_terms":{"molecular_function":[{"id":"GO:0005515","label":"protein binding"}],"biological_process":[{"id":"GO:0007162","label":"negative regulation of cell adhesion"},{"id":"GO:0007266","label":"Rho protein signal transduction"},{"id":"GO:0043547","label":"positive regulation of GTPase activity"}],"cellular_component":[{"id":"GO:0005654","label":"nucleoplasm"}]},"interpro":[{"id":"IPR039482","name":"Neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adapter, N-terminal","type":"domain","start":4,"end":425},{"id":"IPR029353","name":"Neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adapter, C-terminal domain","type":"domain","start":575,"end":841},{"id":"IPR026722","name":"Neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adapter 1/2","type":"family","start":1,"end":841}],"reasoning":"I begin with the InterPro architecture. The polypeptide is bracketed by IPR026722 (Neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adapter 1/2 family, residues 1–841), which frames the entire sequence as a neuron-enriched adaptor scaffold. Within this family envelope, the N-terminal half is defined by IPR039482 (Neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adapter, N-terminal domain, residues 4–425). This N-terminal module typically forms a large, modular binding platform that captures signaling partners and positions them for pathway assembly. The C-terminal half is demarcated by IPR029353 (Neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adapter, C-terminal domain, residues 575–841), a region that often confers specificity by docking distinct effectors and by mediating subcellular targeting. The ordered layout—an extended N-terminal binding platform followed by a C-terminal effector-docking domain—creates a bipartite scaffold optimized for multivalent assembly rather than catalysis. This architecture causally dictates a molecular function centered on multivalent protein binding, consistent with GO:0005515 protein binding.\n\nFrom this scaffolded binding capacity, I infer higher-order signaling roles. The N-terminal platform can recruit phosphoinositide 3-kinase pathway components and cytoskeletal regulators, while the C-terminal domain stabilizes complexes that tune small GTPase circuits. Such assemblies naturally feed into GO:0007266 Rho protein signal transduction: scaffolds of this class bridge lipid signaling to actin and microtubule systems by positioning Rho-family regulators and their downstream effectors. By assembling GAPs and GEFs into productive complexes, the scaffold can increase the turnover of GTP-bound small GTPases, providing a mechanistic basis for GO:0043547 positive regulation of GTPase activity. In neurons, this same wiring impinges on adhesion machinery—integrin and cadherin complexes respond to PI3K- and Rho-dependent cues—so the scaffold’s control of these pathways explains GO:0007162 negative regulation of cell adhesion.\n\nCellular placement follows from the domain logic and known trafficking of signaling scaffolds. The absence of transmembrane cores and the presence of large soluble interaction modules argue for a nucleocytoplasmic distribution. The explicit nucleoplasmic enrichment is captured by GO:0005654 nucleoplasm and aligns with a model where the scaffold assembles and regulates signaling modules that interface with transcriptional programs and cytoskeletal adaptors. A nucleoplasmic pool can coordinate nuclear-cytoplasmic signaling flux, while a cytoplasmic fraction engages membrane-proximal PI3K and Rho pathways.\n\nMechanistically, I propose that the N-terminal domain nucleates complexes with phosphoinositide 3-kinase adaptors and neuronal kinases, while the C-terminal domain locks in effectors that modulate Rho GTPase cycles and adhesion machinery. This bipartite assembly tunes pathway amplitude and timing: in the nucleoplasm it can prime gene-expression modules; in the cytoplasm it can restrain adhesion through enhanced GTPase cycling. Likely partners include PI3K-associated adaptors and neuronal tyrosine kinases that phosphorylate and regulate the scaffold, as well as Rho-family regulators and cytoskeletal adaptors that together govern neurite dynamics and adhesion control.","category":"dark","control_evaluation":null,"validation_plan":null,"structure":{"source":"AlphaFold DB","pdb":"/structures/AF-Q6ZVC0.pdb","alphafold":"https://alphafold.ebi.ac.uk/entry/Q6ZVC0"},"links":{"uniprot":"https://www.uniprot.org/uniprotkb/Q6ZVC0/entry","atlas":"/p/Q6ZVC0"},"provenance":{"model":"BioReason-Pro (ESM3 esm3-sm-open-v1)","source_list":"Pharos Tdark","note":"AI prediction, not experimentally verified"}}