Annotations: 2KNZ

Domain Annotation: SCOP/SCOPe Classification SCOP Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d2knza1	All alpha proteins	RuvA C-terminal domain-like	UBA-like	UBA domain	automated matches	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d2knza2	Artifacts	Tags	Tags	Tags	N-terminal Tags	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	8081537	4000749	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	UBA-like	8081538	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	UBA	e2knzA1	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: UBA	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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00627	UBA/TS-N domain (UBA)	UBA/TS-N domain	This small domain is composed of three alpha helices. This family includes the previously defined UBA and TS-N domains. The UBA-domain (ubiquitin associated domain) is a novel sequence motif found in several proteins having connections to ubiquitin a ...	This small domain is composed of three alpha helices. This family includes the previously defined UBA and TS-N domains. The UBA-domain (ubiquitin associated domain) is a novel sequence motif found in several proteins having connections to ubiquitin and the ubiquitination pathway. The structure of the UBA domain consists of a compact three helix bundle [1]. This domain is found at the N terminus of EF-TS hence the name TS-N. The structure of EF-TS is known and this domain is implicated in its interaction with EF-TU [2]. The domain has been found in non EF-TS proteins such as alpha-NAC Swiss:P70670 and MJ0280 Swiss:Q57728 [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Ubiquilin-4	polyubiquitin modification-dependent protein binding protein binding binding K48-linked polyubiquitin modification-dependent protein binding modification-dependent protein binding identical protein binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process regulation of DNA recombination regulation of cellular process regulation of double-strand break repair regulation of cellular response to stress negative regulation of biological process negative regulation of nitrogen compound metabolic process negative regulation of cellular metabolic process regulation of primary metabolic process cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process regulation of DNA recombination regulation of cellular process regulation of double-strand break repair regulation of cellular response to stress negative regulation of biological process negative regulation of nitrogen compound metabolic process negative regulation of cellular metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process regulation of nitrogen compound metabolic process heterocycle metabolic process negative regulation of double-strand break repair negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process negative regulation of double-strand break repair via homologous recombination double-strand break repair via homologous recombination double-strand break repair regulation of biological process cellular metabolic process negative regulation of metabolic process DNA recombination cellular nitrogen compound metabolic process primary metabolic process regulation of cellular metabolic process DNA metabolic process regulation of double-strand break repair via homologous recombination negative regulation of DNA recombination organic cyclic compound metabolic process regulation of response to stimulus metabolic process macromolecule metabolic process regulation of metabolic process regulation of DNA metabolic process negative regulation of DNA repair organic substance metabolic process regulation of response to stress negative regulation of cellular process nitrogen compound metabolic process recombinational repair DNA repair negative regulation of macromolecule metabolic process negative regulation of response to stimulus biological regulation regulation of macromolecule metabolic process nucleic acid metabolic process regulation of DNA repair negative regulation of DNA metabolic process cellular aromatic compound metabolic process negative regulation of cellular catabolic process catabolic process regulation of cellular component organization regulation of autophagosome maturation macroautophagy autophagy protein-containing complex disassembly regulation of autophagy regulation of protein-containing complex disassembly cellular catabolic process cellular component organization autophagosome maturation negative regulation of protein-containing complex disassembly cellular component organization or biogenesis process utilizing autophagic mechanism cellular component disassembly negative regulation of catabolic process negative regulation of cellular component organization protein-containing complex organization regulation of catabolic process negative regulation of autophagosome maturation regulation of organelle organization negative regulation of macroautophagy organelle organization regulation of macroautophagy negative regulation of autophagy regulation of cellular catabolic process organonitrogen compound catabolic process organonitrogen compound metabolic 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 proteasome-mediated ubiquitin-dependent protein catabolic process regulation of ubiquitin-dependent protein catabolic process regulation of proteolysis involved in protein catabolic process regulation of proteolysis regulation of protein metabolic process proteasomal protein catabolic process regulation of proteasomal ubiquitin-dependent protein catabolic process regulation of proteasomal protein catabolic process regulation of protein catabolic process	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle protein-containing complex catalytic complex peptidase complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle nuclear proteasome complex intracellular organelle lumen intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle protein-containing complex catalytic complex peptidase complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle nuclear proteasome complex intracellular organelle lumen intracellular organelle organelle lumen organelle proteasome complex endopeptidase complex intracellular protein-containing complex nuclear lumen nucleoplasm cytosolic proteasome complex organelle subcompartment membrane endomembrane system endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum organelle membrane endoplasmic reticulum membrane cytoplasmic vesicle intracellular vesicle vesicle vacuole autophagosome perinuclear region of cytoplasm intracellular non-membrane-bounded organelle site of DNA damage chromosome non-membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR015940	Ubiquitin-associated domain	Domain
A	IPR000626	Ubiquitin-like domain	Domain
A	IPR015496	Ubiquilin	Family
A	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
A	IPR009060	UBA-like superfamily	Homologous Superfamily
A	IPR006636	Heat shock chaperonin-binding	Domain

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.