6JLQ

Crystal structure of human USP46-WDR48-WDR20 complex

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d6jlqa_	Alpha and beta proteins (a+b)	Cysteine proteinases	Cysteine proteinases	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Cysteine proteinases	8067281	3001808	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	UCH	e6jlqA1	A: a+b complex topology	X: Cysteine proteinases-like	H: Cysteine proteinases (From Topology)	T: Cysteine proteinases	F: UCH	ECOD (1.6)
B	ANAPC4_WD40_18	e6jlqB2	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: ANAPC4_WD40_18	ECOD (1.6)
B	KOG0308	e6jlqB1	A: beta duplicates or obligate multimers	X: WD repeat-containing protein 48 ancillary domain (From Topology)	H: WD repeat-containing protein 48 ancillary domain (From Topology)	T: WD repeat-containing protein 48 ancillary domain	F: KOG0308	ECOD (1.6)
C	ANAPC4_WD40_8	e6jlqC1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: ANAPC4_WD40_8	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00443	Ubiquitin carboxyl-terminal hydrolase (UCH)	Ubiquitin carboxyl-terminal hydrolase	-	Family
B	PF11816	Domain of unknown function (DUF3337) (DUF3337)	Domain of unknown function (DUF3337)	-	Family
B	PF00400	WD domain, G-beta repeat (WD40)	WD domain, G-beta repeat	-	Repeat
C	PF00400	WD domain, G-beta repeat (WD40)	WD domain, G-beta repeat	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Ubiquitin carboxyl-terminal hydrolase 46	cysteine-type peptidase activity ubiquitin-like protein peptidase activity peptidase activity cysteine-type deubiquitinase activity catalytic activity, acting on a protein hydrolase activity catalytic activity deubiquitinase activity cation binding ion binding binding metal ion binding small molecule binding	trans-synaptic signaling regulation of biological process regulation of signaling regulation of cellular process synaptic transmission, GABAergic modulation of chemical synaptic transmission signaling biological regulation cell-cell signaling chemical synaptic transmission cell communication synaptic signaling regulation of trans-synaptic signaling anterograde trans-synaptic signaling trans-synaptic signaling regulation of biological process regulation of signaling regulation of cellular process synaptic transmission, GABAergic modulation of chemical synaptic transmission signaling biological regulation cell-cell signaling chemical synaptic transmission cell communication synaptic signaling regulation of trans-synaptic signaling anterograde trans-synaptic signaling regulation of cell communication cellular process regulation of synaptic transmission, GABAergic reflex response to stimulus response to external stimulus righting reflex behavioral defense response behavior multicellular organismal process fear response behavioral fear response defense response response to stress multicellular organismal response to stress protein deubiquitination protein modification by small protein removal macromolecule modification metabolic process primary metabolic process protein metabolic process macromolecule metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation or removal proteolysis adult feeding behavior adult behavior feeding behavior response to alcohol response to chemical behavioral response to ethanol response to oxygen-containing compound response to ethanol	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle
B	WD repeat-containing protein 48	protein binding binding ubiquitin binding ubiquitin-like protein binding DNA binding organic cyclic compound binding nucleic acid binding double-stranded DNA binding enzyme regulator activity enzyme activator activity peptidase regulator activity molecular function activator activity molecular function regulator activity deubiquitinase activator activity protein binding binding ubiquitin binding ubiquitin-like protein binding DNA binding organic cyclic compound binding nucleic acid binding double-stranded DNA binding enzyme regulator activity enzyme activator activity peptidase regulator activity molecular function activator activity molecular function regulator activity deubiquitinase activator activity peptidase activator activity single-stranded DNA binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process developmental process multicellular organismal process reproductive system development gonad development tube development reproductive process sex differentiation animal organ development cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process developmental process multicellular organismal process reproductive system development gonad development tube development reproductive process sex differentiation animal organ development developmental process involved in reproduction male gonad development male sex differentiation multicellular organism development development of primary male sexual characteristics development of primary sexual characteristics seminiferous tubule development anatomical structure development reproductive structure development system development spermatogenesis sexual reproduction multicellular organismal reproductive process male gamete generation gamete generation multicellular organismal-level homeostasis homeostatic process homeostasis of number of cells skin development fertilization single fertilization regulation of biological process cell population proliferation regulation of cellular process positive regulation of cell population proliferation positive regulation of epithelial cell proliferation biological regulation positive regulation of biological process regulation of cell population proliferation regulation of epithelial cell proliferation epithelial cell proliferation positive regulation of cellular process embryonic organ development embryo development regulation of DNA recombination regulation of double-strand break repair regulation of cellular response to stress positive regulation of double-strand break repair via homologous recombination regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of response to stimulus positive regulation of metabolic process positive regulation of DNA repair regulation of response to stress recombinational repair positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process double-strand break repair via homologous recombination DNA repair positive regulation of DNA recombination double-strand break repair positive regulation of nucleobase-containing compound metabolic process DNA recombination primary metabolic process DNA metabolic process regulation of macromolecule metabolic process nucleic acid metabolic process positive regulation of double-strand break repair regulation of DNA repair regulation of double-strand break repair via homologous recombination positive regulation of DNA metabolic process regulation of response to stimulus metabolic process macromolecule metabolic process regulation of metabolic process regulation of DNA metabolic process positive regulation of cell communication cell surface receptor signaling pathway via STAT positive regulation of signal transduction signaling positive regulation of receptor signaling pathway via STAT regulation of signal transduction positive regulation of receptor signaling pathway via JAK-STAT cell communication regulation of receptor signaling pathway via JAK-STAT signal transduction regulation of signaling cell surface receptor signaling pathway regulation of cell communication regulation of receptor signaling pathway via STAT cell surface receptor signaling pathway via JAK-STAT positive regulation of signaling anatomical structure morphogenesis skeletal system development skeletal system morphogenesis animal organ morphogenesis regulation of protein modification process regulation of post-translational protein modification regulation of protein metabolic process regulation of protein ubiquitination protein monoubiquitination protein ubiquitination macromolecule modification regulation of protein monoubiquitination protein metabolic process regulation of protein modification by small protein conjugation or removal protein modification process post-translational protein modification protein modification by small protein conjugation protein modification by small protein conjugation or removal multicellular organism growth developmental growth growth	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle intracellular organelle organelle intracellular membrane-bounded organelle nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle intracellular organelle organelle intracellular membrane-bounded organelle nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen lytic vacuole vacuole lysosome endosome intracellular vesicle endomembrane system cytoplasmic vesicle late endosome vesicle
C	WD repeat-containing protein 20,highly similar to WD repeat protein 20,WD repeat-containing protein 20	enzyme regulator activity enzyme activator activity peptidase regulator activity molecular function activator activity molecular function regulator activity deubiquitinase activator activity peptidase activator activity	-	intracellular anatomical structure cytoplasm cellular anatomical entity membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR028889	Ubiquitin specific protease domain	Domain
A	IPR050164	Ubiquitin carboxyl-terminal hydrolases	Family
A	IPR018200	Ubiquitin specific protease, conserved site	Conserved Site
A	IPR001394	Peptidase C19, ubiquitin carboxyl-terminal hydrolase	Domain
A	IPR038765	Papain-like cysteine peptidase superfamily	Homologous Superfamily
B	IPR019775	WD40 repeat, conserved site	Conserved Site
B	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
B	IPR021772	WDR48/Bun107	Family
B	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
B	IPR051246	WD repeat-containing protein 48	Family
B	IPR001680	WD40 repeat	Repeat
B	IPR020472	G-protein beta WD-40 repeat	Repeat
C	IPR001680	WD40 repeat	Repeat
C	IPR051362	WD repeat creC family regulators	Family
C	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
C	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P62068	atypical teratoid rhabdoid tumor glioblastoma lung cancer malignant glioma osteosarcoma primitive neuroectodermal tumor subependymal giant cell astrocytoma bipolar disorder interstitial cystitis major depressive disorder medulloblastoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia schizophrenia cystic fibrosis large cell medulloblastoma atypical teratoid rhabdoid tumor glioblastoma lung cancer malignant glioma osteosarcoma primitive neuroectodermal tumor subependymal giant cell astrocytoma bipolar disorder interstitial cystitis major depressive disorder medulloblastoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia schizophrenia cystic fibrosis large cell medulloblastoma malignant ependymoma non-small cell lung carcinoma pituitary cancer spina bifida
B	Pharos: Q8TAF3	malignant mesothelioma osteosarcoma Spastic Paraplegia, Hereditary medulloblastoma ovarian cancer metabolic syndrome X psoriasis
C	Pharos: Q8TBZ3	astrocytic tumor familial nonmedullary thyroid carcinoma large cell medulloblastoma ovarian cancer Thyroid Cancer, Papillary breast cancer gastric cancer medulloblastoma rheumatoid arthritis thyroid gland papillary carcinoma gastric carcinoma osteosarcoma subependymal giant cell astrocytoma

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.