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InterPro-Version: 108.0
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{
"metadata": {
"accession": "IPR034102",
"entry_id": null,
"type": "domain",
"go_terms": [
{
"identifier": "GO:0000387",
"name": "spliceosomal snRNP assembly",
"category": {
"code": "P",
"name": "biological_process"
}
}
],
"source_database": "interpro",
"member_databases": {
"cdd": {
"cd01724": "Sm protein D1"
}
},
"integrated": null,
"hierarchy": {
"accession": "IPR047575",
"name": "Sm domain",
"type": "Domain",
"children": [
{
"accession": "IPR001163",
"name": "Sm domain, eukaryotic/archaea-type",
"type": "Domain",
"children": [
{
"accession": "IPR033871",
"name": "Sm-like protein LSm5",
"type": "Domain",
"children": []
},
{
"accession": "IPR034101",
"name": "Sm-like protein Lsm4",
"type": "Domain",
"children": []
},
{
"accession": "IPR034102",
"name": "Small nuclear ribonucleoprotein D1",
"type": "Domain",
"children": []
},
{
"accession": "IPR034103",
"name": "Sm-like protein Lsm8",
"type": "Domain",
"children": []
},
{
"accession": "IPR034104",
"name": "Sm-like protein Lsm1",
"type": "Domain",
"children": []
},
{
"accession": "IPR034105",
"name": "Sm-like protein Lsm3",
"type": "Domain",
"children": []
},
{
"accession": "IPR034109",
"name": "U7 snRNA-associated Sm-like protein LSM11, middle domain",
"type": "Domain",
"children": []
},
{
"accession": "IPR034110",
"name": "LSM domain containing 1, Sm domain",
"type": "Domain",
"children": []
}
]
}
]
},
"name": {
"name": "Small nuclear ribonucleoprotein D1",
"short": "Sm_D1"
},
"description": [
{
"text": "<p>The eukaryotic Sm proteins (B/B', D1, D2, D3, E, F and G) assemble into a hetero-heptameric ring around the Sm site of the 2,2,7-trimethyl guanosine (m3G) capped U1, U2, U4 and U5 snRNAs (Sm snRNAs) forming the core of the snRNP particle. The snRNP particle, in turn, assembles with other components onto the pre-mRNA to form the spliceosome which is responsible for the excision of introns and the ligation of exons. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel β-sheet [[cite:PUB00081009], [cite:PUB00081007], [cite:PUB00081008]].</p>\r\n\r\n\r\n<p>Sm subunit D1 heterodimerizes with subunit D2 and three such heterodimers form a hexameric ring structure with alternating D1 and D2 subunits. The D1 - D2 heterodimer also assembles into a heptameric ring containing DB, D3, E, F, and G subunits [[cite:PUB00072203], [cite:PUB00065020]].</p>",
"llm": false,
"checked": false,
"updated": false
}
],
"wikipedia": null,
"literature": {
"PUB00081009": {
"PMID": 10369684,
"ISBN": null,
"volume": "18",
"issue": "12",
"year": 1999,
"title": "Sm and Sm-like proteins assemble in two related complexes of deep evolutionary origin.",
"URL": null,
"raw_pages": "3451-62",
"medline_journal": "EMBO J",
"ISO_journal": "EMBO J.",
"authors": [
"Salgado-Garrido J",
"Bragado-Nilsson E",
"Kandels-Lewis S",
"Seraphin B."
],
"DOI_URL": "http://dx.doi.org/10.1093/emboj/18.12.3451"
},
"PUB00081007": {
"PMID": 11259661,
"ISBN": null,
"volume": "98",
"issue": "7",
"year": 2001,
"title": "The Sm domain is an ancient RNA-binding motif with oligo(U) specificity.",
"URL": null,
"raw_pages": "3685-9",
"medline_journal": "Proc Natl Acad Sci U S A",
"ISO_journal": "Proc. Natl. Acad. Sci. U.S.A.",
"authors": [
"Achsel T",
"Stark H",
"Luhrmann R."
],
"DOI_URL": "http://dx.doi.org/10.1073/pnas.071033998"
},
"PUB00081008": {
"PMID": 11226169,
"ISBN": null,
"volume": "20",
"issue": "1-2",
"year": 2001,
"title": "Sm protein-Sm site RNA interactions within the inner ring of the spliceosomal snRNP core structure.",
"URL": null,
"raw_pages": "187-96",
"medline_journal": "EMBO J",
"ISO_journal": "EMBO J.",
"authors": [
"Urlaub H",
"Raker VA",
"Kostka S",
"Luhrmann R."
],
"DOI_URL": "http://dx.doi.org/10.1093/emboj/20.1.187"
},
"PUB00072203": {
"PMID": 18984161,
"ISBN": null,
"volume": "135",
"issue": "3",
"year": 2008,
"title": "An assembly chaperone collaborates with the SMN complex to generate spliceosomal SnRNPs.",
"URL": null,
"raw_pages": "497-509",
"medline_journal": "Cell",
"ISO_journal": "Cell",
"authors": [
"Chari A",
"Golas MM",
"Klingenhager M",
"Neuenkirchen N",
"Sander B",
"Englbrecht C",
"Sickmann A",
"Stark H",
"Fischer U."
],
"DOI_URL": "http://dx.doi.org/10.1016/j.cell.2008.09.020"
},
"PUB00065020": {
"PMID": 23333303,
"ISBN": null,
"volume": "49",
"issue": "4",
"year": 2013,
"title": "Structural Basis of Assembly Chaperone- Mediated snRNP Formation.",
"URL": null,
"raw_pages": "692-703",
"medline_journal": "Mol Cell",
"ISO_journal": "Mol. Cell",
"authors": [
"Grimm C",
"Chari A",
"Pelz JP",
"Kuper J",
"Kisker C",
"Diederichs K",
"Stark H",
"Schindelin H",
"Fischer U."
],
"DOI_URL": "http://dx.doi.org/10.1016/j.molcel.2012.12.009"
}
},
"set_info": null,
"overlaps_with": [
{
"accession": "IPR010920",
"name": "LSM domain superfamily",
"type": "homologous_superfamily"
}
],
"counters": {
"subfamilies": 0,
"domain_architectures": 0,
"interactions": 0,
"matches": 4430,
"pathways": 16,
"proteins": 4420,
"proteomes": 2999,
"sets": 0,
"structural_models": {
"alphafold": 3994,
"bfvd": 0
},
"structures": 91,
"taxa": 8661
},
"entry_annotations": {},
"cross_references": {},
"is_llm": false,
"is_reviewed_llm": false,
"is_updated_llm": false,
"representative_structure": {
"accession": "4f7u",
"name": "The 6S snRNP assembly intermediate"
}
}
}
