Annotations: 5K1A

Crystal structure of the UAF1-USP12 complex in C2 space group

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	Brix	e5k1aD3	A: beta barrels	X: Trefoil/Plexin domain-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Brix	ECOD (v294.2)
D	Ribosomal_S5_C	e5k1aD2	A: beta barrels	X: HAD domain-like	H: Hemagglutinin HA2 chain	T: Hemagglutinin HA2 chain	F: Ribosomal_S5_C	ECOD (v294.2)
H	Brix	e5k1aH3	A: beta barrels	X: Trefoil/Plexin domain-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Brix	ECOD (v294.2)
H	Ribosomal_S5_C	e5k1aH2	A: beta barrels	X: HAD domain-like	H: Hemagglutinin HA2 chain	T: Hemagglutinin HA2 chain	F: Ribosomal_S5_C	ECOD (v294.2)
F	Brix	e5k1aF3	A: beta barrels	X: Trefoil/Plexin domain-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Brix	ECOD (v294.2)
F	Ribosomal_S5_C	e5k1aF2	A: beta barrels	X: HAD domain-like	H: Hemagglutinin HA2 chain	T: Hemagglutinin HA2 chain	F: Ribosomal_S5_C	ECOD (v294.2)
B	Brix	e5k1aB3	A: beta barrels	X: Trefoil/Plexin domain-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Brix	ECOD (v294.2)
B	Ribosomal_S5_C	e5k1aB2	A: beta barrels	X: HAD domain-like	H: Hemagglutinin HA2 chain	T: Hemagglutinin HA2 chain	F: Ribosomal_S5_C	ECOD (v294.2)
C	UCH	e5k1aC1	A: beta barrels	X: Rossmann-like	H: RIFT-related	T: acid protease	F: UCH	ECOD (v294.2)
E	TGS	e5k1aE1	A: beta barrels	X: Rossmann-like	H: RIFT-related	T: acid protease	F: TGS	ECOD (v294.2)
G	TGS	e5k1aG1	A: beta barrels	X: Rossmann-like	H: RIFT-related	T: acid protease	F: TGS	ECOD (v294.2)
A	UCH	e5k1aA1	A: beta barrels	X: Rossmann-like	H: RIFT-related	T: acid protease	F: UCH	ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, D, F, H	PF11816	Domain of unknown function (DUF3337) (DUF3337)	Domain of unknown function (DUF3337)	-	Family
B, D, F, H	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
B, D, F, H	WD repeat-containing protein 48	protein binding binding ubiquitin binding ubiquitin-like protein binding DNA 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 protein binding binding ubiquitin binding ubiquitin-like protein binding DNA 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 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 protein ubiquitination protein ubiquitination protein metabolic process regulation of protein modification by small protein conjugation or removal protein modification process regulation of post-translational protein modification regulation of protein metabolic process protein monoubiquitination macromolecule modification regulation of protein monoubiquitination post-translational protein modification protein modification by small protein conjugation protein modification by small protein conjugation or removal multicellular organism growth developmental growth growth	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen lytic vacuole vacuole lysosome endosome intracellular vesicle endomembrane system cytoplasmic vesicle late endosome vesicle
A, C, E, G	Ubiquitin carboxyl-terminal hydrolase 12	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 cysteine-type endopeptidase activity endopeptidase activity cation binding ion binding binding metal ion binding 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 cysteine-type endopeptidase activity endopeptidase activity cation binding ion binding binding metal ion binding small molecule binding	regulation of protein stability biological regulation regulation of biological quality protein deubiquitination primary metabolic process protein modification by small protein removal macromolecule modification metabolic process cellular process protein metabolic process macromolecule metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation or removal regulation of protein stability biological regulation regulation of biological quality protein deubiquitination primary metabolic process protein modification by small protein removal macromolecule modification metabolic process cellular process protein metabolic process macromolecule metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation or removal proteolysis	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane 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
B, D, F, H	IPR019775	WD40 repeat, conserved site	Conserved Site
B, D, F, H	IPR021772	WDR48/Bun107, ubiquitin-like domain	Domain
B, D, F, H	IPR020472	PAC1/LIS1-like, WD-40 repeat	Repeat
B, D, F, H	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
B, D, F, H	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
B, D, F, H	IPR051246	WD repeat-containing protein 48	Family
B, D, F, H	IPR001680	WD40 repeat	Repeat
A, C, E, G	IPR050164	Ubiquitin carboxyl-terminal hydrolases	Family
A, C, E, G	IPR028889	Ubiquitin specific protease UPS, catalytic domain	Domain
A, C, E, G	IPR018200	Ubiquitin specific protease, conserved site	Conserved Site
A, C, E, G	IPR001394	Peptidase C19, ubiquitin carboxyl-terminal hydrolase	Domain
A, C, E, G	IPR038765	Papain-like cysteine peptidase superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B, D, F, H	: Q8TAF3	malignant mesothelioma osteosarcoma Spastic Paraplegia, Hereditary medulloblastoma ovarian cancer metabolic syndrome X psoriasis
A, C, E, G	: O75317	astrocytic tumor juvenile dermatomyositis malignant glioma ovarian cancer atypical teratoid rhabdoid tumor large cell medulloblastoma medulloblastoma primitive neuroectodermal tumor glioblastoma malignant ependymoma osteosarcoma

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.