2L80

Solution Structure of the Zinc Finger Domain of USP13

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 Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d2l80a_	Small proteins	RING/U-box	RING/U-box	Zf-UBP	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	SCOP2 Family	Zf-UBP	8081365	4002865	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	RING/U-box like	8081366	3000160	SCOP2 (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	zf-UBP	e2l80A1	A: few secondary structure elements	X: RING/U-box-like	H: RING/U-box-like	T: RING/U-box	F: zf-UBP	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.40.10	Alpha Beta	2-Layer Sandwich	Herpes Virus-1	Zinc/RING finger domain, C3HC4 (zinc finger)	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF02148	Zn-finger in ubiquitin-hydrolases and other protein (zf-UBP)	Zn-finger in ubiquitin-hydrolases and other protein	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Ubiquitin carboxyl-terminal hydrolase 13	ubiquitin-like protein peptidase activity peptidase activity catalytic activity, acting on a protein hydrolase activity K48-linked deubiquitinase activity catalytic activity deubiquitinase activity cysteine-type peptidase activity cysteine-type endopeptidase activity endopeptidase activity protein binding binding ubiquitin binding ubiquitin-like protein binding ubiquitin-like protein peptidase activity peptidase activity catalytic activity, acting on a protein hydrolase activity K48-linked deubiquitinase activity catalytic activity deubiquitinase activity cysteine-type peptidase activity cysteine-type endopeptidase activity endopeptidase activity protein binding binding ubiquitin binding ubiquitin-like protein binding protein-containing complex binding BAT3 complex binding protein-folding chaperone binding cysteine-type deubiquitinase activity ubiquitin-like protein ligase binding enzyme binding ubiquitin protein ligase binding proteasome binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	regulation of protein stability biological regulation regulation of biological quality protein stabilization protein K29-linked deubiquitination protein deubiquitination organonitrogen compound metabolic process primary metabolic process organic substance metabolic process protein modification by small protein removal macromolecule modification metabolic process protein metabolic process macromolecule metabolic process regulation of protein stability biological regulation regulation of biological quality protein stabilization protein K29-linked deubiquitination protein deubiquitination organonitrogen compound metabolic process primary metabolic process organic substance metabolic process protein modification by small protein removal macromolecule modification metabolic process protein metabolic process macromolecule metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation or removal cellular catabolic process catabolic process cellular metabolic process autophagy cellular process process utilizing autophagic mechanism cell population proliferation developmental process pigment cell differentiation pigmentation cellular developmental process cell differentiation developmental pigmentation melanocyte differentiation protein K63-linked deubiquitination protein K6-linked deubiquitination regulation of cellular process cellular biosynthetic process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process regulation of cellular metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process organic cyclic compound metabolic process regulation of gene expression biosynthetic process organic cyclic compound biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process maintenance of unfolded protein regulation of catabolic process regulation of autophagy regulation of cellular catabolic process proteolysis cellular response to stimulus positive regulation of proteasomal protein catabolic process response to organic substance response to stimulus regulation of cellular response to stress positive regulation of metabolic process ERAD pathway regulation of proteolysis positive regulation of macromolecule metabolic process response to endoplasmic reticulum stress regulation of ERAD pathway organonitrogen compound catabolic process response to organonitrogen compound regulation of protein metabolic process response to nitrogen compound positive regulation of protein catabolic process regulation of response to stimulus response to chemical positive regulation of proteolysis regulation of proteasomal protein catabolic process positive regulation of ERAD pathway positive regulation of protein metabolic process proteolysis involved in protein catabolic process positive regulation of biological process regulation of response to endoplasmic reticulum stress macromolecule catabolic process positive regulation of response to stimulus positive regulation of response to endoplasmic reticulum stress cellular response to stress regulation of proteolysis involved in protein catabolic process regulation of response to stress response to stress positive regulation of cellular process proteasomal protein catabolic process protein catabolic process positive regulation of proteolysis involved in protein catabolic process positive regulation of catabolic process organic substance catabolic process regulation of protein catabolic process	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol 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	IPR016652	Ubiquitinyl hydrolase	Family
A	IPR041432	Ubiquitinyl hydrolase, variant UBP zinc finger	Domain
A	IPR001607	Zinc finger, UBP-type	Domain
A	IPR018200	Ubiquitin specific protease, conserved site	Conserved Site
A	IPR038765	Papain-like cysteine peptidase superfamily	Homologous Superfamily
A	IPR015940	Ubiquitin-associated domain	Domain
A	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A	IPR001394	Peptidase C19, ubiquitin carboxyl-terminal hydrolase	Domain
A	IPR009060	UBA-like superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q92995	Arsenic Poisoning adrenal cortex carcinoma medulloblastoma ovarian cancer glioblastoma pituitary cancer atypical teratoid rhabdoid tumor large cell medulloblastoma osteosarcoma skin disease

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.