3L3F | pdb_00003l3f

Crystal structure of a PFU-PUL domain pair of Saccharomyces cerevisiae Doa1/Ufd3

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth X]	SCOP2 Family	PUL domain-like	8050740	4007029	SCOP2 (2022-06-29)
A [auth X]	SCOP2 Family	PFU domain-like	8051477	4007396	SCOP2 (2022-06-29)
A [auth X]	SCOP2 Superfamily	ARM repeat-like	8055784	3000116	SCOP2 (2022-06-29)
A [auth X]	SCOP2 Superfamily	PFU(mutate) domain-like	8055782	3002311	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 [auth X]	Lipase_GDSL	e3l3fX1	A: a/b three-layered sandwiches	X: Globin-like	H: Globin-like	T: Globin-like	F: Lipase_GDSL	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth X]	3.10.20.870	Alpha Beta	Roll	Ubiquitin-like (UB roll)	PFU (PLAA family ubiquitin binding), C-terminal domain	CATH (4.3.0)
A [auth X]	1.25.10.10	Mainly Alpha	Alpha Horseshoe	Leucine-rich Repeat Variant	Leucine-rich Repeat Variant	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth X]	PF08324	PUL domain (PUL)	PUL domain	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth X]	Protein DOA1	protein-containing complex binding binding ubiquitin-modified protein reader activity protein-macromolecule adaptor activity ubiquitin-like protein reader activity molecular adaptor activity polyubiquitin modification-dependent protein binding protein binding K48-linked polyubiquitin modification-dependent protein binding modification-dependent protein binding ubiquitin binding ubiquitin-like protein binding	catabolic process primary metabolic process proteasomal protein catabolic process protein catabolic process mitochondria-associated ubiquitin-dependent protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process catabolic process primary metabolic process proteasomal protein catabolic process protein catabolic process mitochondria-associated ubiquitin-dependent protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process cellular homeostasis homeostatic process ubiquitin recycling cell cycle G1 to G0 transition cell cycle process ribophagy macroautophagy autophagy process utilizing autophagic mechanism cellular response to stimulus double-strand break repair response to stimulus double-strand break repair via nonhomologous end joining DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular response to stress DNA damage response response to stress DNA repair	endosome membrane membrane-bounded organelle intracellular anatomical structure membrane endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle membrane cellular anatomical structure bounding membrane of organelle vesicle membrane cytoplasmic vesicle endosome membrane membrane-bounded organelle intracellular anatomical structure membrane endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle membrane cellular anatomical structure bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle cytoplasm vesicle organelle membrane mitochondrial membrane mitochondrion cytoplasmic side of membrane organelle outer membrane cytoplasmic side of mitochondrial outer membrane side of membrane organelle envelope mitochondrial envelope mitochondrial outer membrane outer membrane nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth X]	IPR038122	PFU domain superfamily	Homologous Superfamily
A [auth X]	IPR016024	Armadillo-type fold	Homologous Superfamily
A [auth X]	IPR015155	PLAA family ubiquitin binding domain	Domain
A [auth X]	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
A [auth X]	IPR020472	PAC1/LIS1-like, WD-40 repeat	Repeat
A [auth X]	IPR011989	Armadillo-like helical	Homologous Superfamily
A [auth X]	IPR013535	PUL domain	Domain
A [auth X]	IPR001680	WD40 repeat	Repeat
A [auth X]	IPR015943	WD40/YVTN repeat-like-containing domain 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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.