HTTP 200 OK
Allow: GET, HEAD
Content-Type: application/json
InterPro-Version: 108.0
InterPro-Version-Minor: 0
Vary: Accept
{
"metadata": {
"accession": "IPR028889",
"entry_id": null,
"type": "domain",
"go_terms": null,
"source_database": "interpro",
"member_databases": {
"profile": {
"PS50235": "Ubiquitin specific protease (USP) domain profile"
}
},
"integrated": null,
"hierarchy": {
"accession": "IPR028889",
"name": "Ubiquitin specific protease UPS, catalytic domain",
"type": "Domain",
"children": [
{
"accession": "IPR001394",
"name": "Peptidase C19, ubiquitin carboxyl-terminal hydrolase",
"type": "Domain",
"children": [
{
"accession": "IPR033815",
"name": "Ubiquitin specific peptidase 1",
"type": "Domain",
"children": []
},
{
"accession": "IPR033840",
"name": "Ubiquitin-specific peptidase 38",
"type": "Domain",
"children": []
},
{
"accession": "IPR033841",
"name": "USP48, peptidase domain",
"type": "Domain",
"children": []
}
]
},
{
"accession": "IPR028881",
"name": "PAN2, UCH domain",
"type": "Domain",
"children": []
},
{
"accession": "IPR028890",
"name": "Ubiquitin-specific peptidase-like, SUMO isopeptidase",
"type": "Domain",
"children": []
}
]
},
"name": {
"name": "Ubiquitin specific protease UPS, catalytic domain",
"short": "USP"
},
"description": [
{
"text": "<p>This entry represents the entire USP domain.\nThe USP catalytic core can be divided into six conserved boxes that are present in all USP domains. Box 1 contains the catalytic Cys residue, box 5 contains the catalytic His [interpro:IPR018200], and box 6 contains the catalytic Asp/Asn residue. All boxes show several additional conserved features and residues. Boxes 3 and 4 contain a Cys-X-X-Cys motif each, which have been shown to constitute a functional zinc-binding motif. Potentially, zinc-binding facilitates folding of the USP core, helping the interaction of sequence motifs some few hundred residues apart. USP domains share a common conserved fold. The USP domain resembles an open hand containing Thumb, Palm and Fingers subdomains. The catalytic triad resides between the Thumb (Cys) and Palm subdomains (His/Asp) [[cite:PUB00072483]].</p>",
"llm": false,
"checked": false,
"updated": false
},
{
"text": "<p>Protein ubiquitination is a reversible posttranslational modification, which affects a large number of cellular processes including protein degradation, trafficking, cell signaling and the DNA damage response. Ubiquitination is reversible, and dedicated deubiquitinases exist which hydrolyze isopeptide bonds. Ubiquitin specific proteases (USPs) ([ec:3.4.19.12]) are the largest family of deubiquitinating enzymes. USP domains consist of a common conserved catalytic core which is interspersed at five points with insertions, some of which as large as the catalytic domain itself. The insertions can fold into independent domains that can be involved in the regulation of deubiquitinase activity. As commonly found in signaling proteins, many USP deubiquitinases have a modular architecture, and not only contain a catalytic domain but also additional protein-protein interaction and localisation domains. Most USP domains cleave the isopeptide linkage between two ubiquitin molecules, and hence contain (at least) two ubiquitin-binding sites, one for the distal ubiquitin, the C terminus of which is linked to the Lys residue on the proximal ubiquitin in a second, proximal binding site [[cite:PUB00072483]]. The USP domain forms the peptidase family C19 [[cite:PUB00003577]].</p>",
"llm": false,
"checked": false,
"updated": false
}
],
"wikipedia": null,
"literature": {
"PUB00072483": {
"PMID": 19734957,
"ISBN": null,
"volume": "5",
"issue": "12",
"year": 2009,
"title": "Dissection of USP catalytic domains reveals five common insertion points.",
"URL": null,
"raw_pages": "1797-808",
"medline_journal": "Mol Biosyst",
"ISO_journal": "Mol Biosyst",
"authors": [
"Ye Y",
"Scheel H",
"Hofmann K",
"Komander D."
],
"DOI_URL": "http://dx.doi.org/10.1039/b907669g"
},
"PUB00003577": {
"PMID": 7845226,
"ISBN": null,
"volume": "244",
"issue": null,
"year": 1994,
"title": "Families of cysteine peptidases.",
"URL": null,
"raw_pages": "461-86",
"medline_journal": "Methods Enzymol",
"ISO_journal": "Meth. Enzymol.",
"authors": [
"Rawlings ND",
"Barrett AJ."
],
"DOI_URL": "http://dx.doi.org/10.1016/0076-6879(94)44034-4"
}
},
"set_info": null,
"overlaps_with": [
{
"accession": "IPR038765",
"name": "Papain-like cysteine peptidase superfamily",
"type": "homologous_superfamily"
}
],
"counters": {
"subfamilies": 0,
"domain_architectures": 0,
"interactions": 2,
"matches": 158211,
"pathways": 155,
"proteins": 157884,
"proteomes": 3490,
"sets": 0,
"structural_models": {
"alphafold": 122556,
"bfvd": 26
},
"structures": 219,
"taxa": 11354
},
"entry_annotations": {},
"cross_references": {
"ec": {
"displayName": "ENZYME",
"description": "ENZYME is a repository of information relative to the nomenclature of enzymes. It is primarily based on the recommendations of the Nomenclature Committee of the International Union of Biochemistry and Molecular Biology (IUBMB) and it describes each type of characterized enzyme for which an EC (Enzyme Commission) number has been provided.",
"rank": 19,
"accessions": [
{
"accession": "3.4.19.12",
"url": "https://enzyme.expasy.org/EC/3.4.19.12"
}
]
}
},
"is_llm": false,
"is_reviewed_llm": false,
"is_updated_llm": false,
"representative_structure": {
"accession": "9f6g",
"name": "Human USP30 chimera bound to Ubiquitin-PA"
}
}
}
