Annotations: 1VDL

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1vdla1	All alpha proteins	RuvA C-terminal domain-like	UBA-like	UBA domain	Ubiquitin carboxyl-terminal hydrolase 25	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d1vdla3	Artifacts	Tags	Tags	Tags	C-terminal Tags	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d1vdla2	Artifacts	Tags	Tags	Tags	N-terminal Tags	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	UBA domain	8028915	4000749	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	UBA-like	8041294	3001235	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	PF22566	e1vdlA1	A: alpha arrays	X: RuvA-C	H: RuvA-C, UBA, CRAL/TRIO-N, HBS1 (From Topology)	T: RuvA-C, UBA, CRAL/TRIO-N, HBS1	F: PF22566	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.8.10	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Ubiquitin carboxyl-terminal hydrolase 25	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 SUMO binding protein binding binding ubiquitin-like protein binding ubiquitin protein ligase binding ubiquitin-like protein ligase 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 SUMO binding protein binding binding ubiquitin-like protein binding ubiquitin protein ligase binding ubiquitin-like protein ligase binding enzyme binding ATPase binding	nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process RNA metabolic process metabolic process primary metabolic process macromolecule metabolic process mRNA metabolic process nucleic acid metabolic process organonitrogen compound catabolic process organonitrogen compound metabolic process catabolic process proteolysis involved in protein catabolic process protein catabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process RNA metabolic process metabolic process primary metabolic process macromolecule metabolic process mRNA metabolic process nucleic acid metabolic process organonitrogen compound catabolic process organonitrogen compound metabolic process catabolic process proteolysis involved in protein catabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process proteolysis ubiquitin-dependent protein catabolic process protein metabolic process organic substance catabolic process cellular response to stimulus response to organic substance regulation of cellular process negative regulation of proteolysis response to stimulus regulation of cellular response to stress negative regulation of biological process regulation of primary metabolic process ERAD pathway regulation of proteolysis negative regulation of protein metabolic process response to endoplasmic reticulum stress regulation of ERAD pathway regulation of biological process response to organonitrogen compound regulation of protein metabolic process negative regulation of metabolic process response to nitrogen compound regulation of response to stimulus negative regulation of proteasomal protein catabolic process response to chemical regulation of proteasomal protein catabolic process regulation of metabolic process negative regulation of proteolysis involved in protein catabolic process negative regulation of ERAD pathway regulation of response to endoplasmic reticulum stress negative regulation of protein catabolic process cellular response to stress regulation of proteolysis involved in protein catabolic process regulation of response to stress response to stress negative regulation of cellular process negative regulation of macromolecule metabolic process negative regulation of response to endoplasmic reticulum stress negative regulation of catabolic process negative regulation of response to stimulus biological regulation proteasomal protein catabolic process regulation of macromolecule metabolic process regulation of catabolic process cellular process regulation of protein catabolic process regulation of protein stability regulation of biological quality signaling intracellular signal transduction cell communication stress-activated protein kinase signaling cascade signal transduction immune response immune system process response to oxidative stress cell surface receptor signaling pathway cellular response to interleukin-17 response to interleukin-17 response to cytokine cytokine-mediated signaling pathway cellular response to chemical stimulus interleukin-17-mediated signaling pathway cellular response to cytokine stimulus cellular response to organic substance	protein-containing complex catalytic complex peptidase complex proteasome complex endopeptidase complex intracellular protein-containing complex intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle intracellular organelle organelle nucleus protein-containing complex catalytic complex peptidase complex proteasome complex endopeptidase complex intracellular protein-containing complex intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle endoplasmic reticulum endomembrane system

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR028889	Ubiquitin specific protease domain	Domain
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
A	IPR003903	Ubiquitin interacting motif	Conserved Site
A	IPR009060	UBA-like superfamily	Homologous Superfamily

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 R01GM133198.