{"uniprot":"A6NFE2","gene":"SMCO2","name":"Single-pass membrane and coiled-coil domain-containing protein 2","organism":"Homo sapiens (Human)","status":"dark","length":343,"sequence":"MALTPTNLNNKMSLQMKMDCQEQQLTKKNNGFFQKLNVTEGAMQDLLKEIIKVDHILDRSDDEDDISSENPQTDFLHKGMLELEAEHDQDLSKQDKQETDVDEDPQASTSLQFSKKNLLELCLKGMFLKLNYWNTKIGLQVKELGADYIDGTEKIDNIIKKINVTENTVKSLLKDMLTLKGQIEKLEDRGLDLDQGTSTEVNTCNEVYELKKKVIERLEDLCKNVELLSAKLRMYQMEAEDTDSHSSEEIDTEEMEALLPQAPASFLVQKSPPRNTAWKRALRIFIMFDVLTVTGLLCYILFFGATFLFERVLLRMLGCRTTWDLREMREPFLNLEVEALLPS","function_summary":"A membrane-embedded coiled-coil scaffold that assembles protein complexes at endoplasmic reticulum and mitochondria-associated ER membranes to tune receptor trafficking. By organizing endocytic machinery at ER–endosome and ER–plasma membrane interfaces, it dampens receptor uptake pathways and modulates internalization decisions. Its mechanism relies on multivalent protein binding and oligomerization to position and restrain endocytic adaptors and clathrin machinery at ER contact sites.","plain_language":"SMCO2 has barely been studied. The model's best guess: A membrane-embedded coiled-coil scaffold that assembles protein complexes at endoplasmic reticulum and mitochondria-associated ER membranes to tune receptor trafficking. By organizing endocytic machinery at ER–endosome and ER–plasma membrane interfaces, it dampens receptor uptake pathways and modulates internalization decisions.","uniprot_summary":"May be involved in endocytosis.","go_terms":{"molecular_function":[{"id":"GO:0005515","label":"protein binding"}],"biological_process":[{"id":"GO:0048261","label":"negative regulation of receptor-mediated endocytosis"},{"id":"GO:0002090","label":"regulation of receptor internalization"}],"cellular_component":[{"id":"GO:0044233","label":"mitochondria-associated endoplasmic reticulum membrane"},{"id":"GO:0005789","label":"endoplasmic reticulum membrane"}]},"interpro":[{"id":"IPR026617","name":"Transmembrane and coiled-coil domain-containing protein 2/5","type":"family","start":10,"end":343}],"reasoning":"I begin with the InterPro architecture. The sequence is dominated by IPR026617 (Transmembrane and coiled-coil domain-containing protein 2/5 family) spanning residues 10–343, essentially covering the full-length polypeptide. This family signature denotes a membrane-embedded scaffold enriched in extended coiled-coil segments that mediate oligomerization and selective protein–protein interactions. The breadth of the family domain and absence of catalytic motifs argue that the protein functions primarily through binding and assembly rather than enzymatic chemistry. The architecture therefore causes a binding-centric molecular role, consistent with GO:0005515 protein binding.\n\nA membrane-tethered coiled-coil scaffold at endoplasmic reticulum (ER) interfaces can regulate membrane traffic by organizing endocytic machinery and cargo adaptors. Localization to ER and mitochondria-associated ER membranes (MAMs) positions the protein at ER–endosome and ER–plasma membrane contact sites where receptor internalization decisions are made. By stabilizing complexes that favor endosome maturation and cargo sorting, this scaffold can dampen receptor uptake pathways, aligning with GO:0048261 negative regulation of receptor-mediated endocytosis and GO:0002090 regulation of receptor internalization. The causal chain is: membrane-anchored coiled-coil assembly → enhanced avidity and spatial control of endocytic factors → reduced receptor internalization.\n\nCellular placement follows directly from the domain family and functional logic. The membrane-embedded nature and coiled-coil–mediated oligomerization situate the protein in the GO:0005789 endoplasmic reticulum membrane. Its enrichment at ER–mitochondria junctions is captured by GO:0044233 mitochondria-associated endoplasmic reticulum membrane, a site that coordinates lipid exchange and signaling that feed back onto endocytosis and receptor fate.\n\nMechanistically, I hypothesize that the protein forms higher-order assemblies at ER and MAMs to sequester or spatially segregate endocytic adaptors and clathrin-associated modules. By concentrating or excluding AP-2, clathrin, and dynamin at ER–endosome contacts, it biases receptor trafficking away from rapid internalization routes. Likely interaction partners include ER–endosome tethers and endocytic effectors (e.g., TOMM20/TOMM70 at MAMs for positioning; AP-2 and clathrin for endocytic control; dynamin and epsin for vesicle scission and cargo capture). Through these assemblies, the protein acts as a membrane-resident organizer that tunes receptor internalization dynamics.","category":"dark","control_evaluation":null,"validation_plan":null,"structure":{"source":"AlphaFold DB","pdb":"/structures/AF-A6NFE2.pdb","alphafold":"https://alphafold.ebi.ac.uk/entry/A6NFE2"},"links":{"uniprot":"https://www.uniprot.org/uniprotkb/A6NFE2/entry","atlas":"/p/A6NFE2"},"provenance":{"model":"BioReason-Pro (ESM3 esm3-sm-open-v1)","source_list":"Pharos Tdark","note":"AI prediction, not experimentally verified"}}