3MKR | pdb_00003mkr

Crystal structure of yeast alpha/epsilon-COP subcomplex of the COPI vesicular coat

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	SCOP2 Family	Coatomer epsilon subunit-like	8046375	4005048	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	TPR-like	8095919	3001345	SCOP2 (2022-06-29)
B	SCOP2 Family	Coatomer alpha subunit C-terminal region-like	8048956	4006290	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	TPR-like	8095920	3001345	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	RING/U-box like	8095923	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		e3mkrA1	A: Cystatin-like	X: Cytochrome b5-like heme/steroid binding domain	H: Cytochrome b5-like heme/steroid binding domain	T: Peptidase_S51	F:	ECOD (20:10:01)
B		e3mkrB1	A: RING/U-box-like	X: RING/U-box-like	H: FYVE/PHD zinc finger	T: zf-CW	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.25.40.10	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Tetratricopeptide repeat domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF04733	Coatomer epsilon subunit (Coatomer_E)	Coatomer epsilon subunit	-	Repeat
B	PF06957	Coatomer (COPI) alpha subunit C-terminus (COPI_C)	Coatomer (COPI) alpha subunit C-terminus	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Coatomer subunit epsilon	structural molecule activity	localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport macromolecule localization protein localization to axon intracellular protein localization retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum cellular localization establishment of localization in cell intracellular transport localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport macromolecule localization protein localization to axon intracellular protein localization retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum cellular localization establishment of localization in cell intracellular transport endoplasmic reticulum to Golgi vesicle-mediated transport establishment of protein localization protein transport	membrane-bounded organelle protein-containing complex intracellular anatomical structure vesicle coat intracellular vesicle membrane protein complex endomembrane system COPI-coated vesicle membrane coat intracellular organelle cellular anatomical structure bounding membrane of organelle vesicle membrane cytoplasmic vesicle membrane-bounded organelle protein-containing complex intracellular anatomical structure vesicle coat intracellular vesicle membrane protein complex endomembrane system COPI-coated vesicle membrane coat intracellular organelle cellular anatomical structure bounding membrane of organelle vesicle membrane cytoplasmic vesicle coated vesicle Golgi-associated vesicle vesicle COPI vesicle coat Golgi apparatus membrane coated membrane intracellular membrane-bounded organelle COPI-coated vesicle membrane coated vesicle membrane cytoplasmic vesicle membrane organelle Golgi-associated vesicle membrane cytoplasm organelle membrane Golgi membrane nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen
B	Coatomer subunit alpha	hormone activity molecular function activator activity molecular function regulator activity signaling receptor regulator activity receptor ligand activity signaling receptor activator activity structural molecule activity	localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport cellular localization establishment of protein localization intracellular transport protein transport establishment of localization in cell macromolecule localization intracellular protein localization localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport cellular localization establishment of protein localization intracellular transport protein transport establishment of localization in cell macromolecule localization intracellular protein localization intracellular protein transport retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum endoplasmic reticulum to Golgi vesicle-mediated transport	membrane-bounded organelle protein-containing complex intracellular anatomical structure vesicle coat intracellular vesicle membrane protein complex endomembrane system COPI-coated vesicle membrane coat intracellular organelle cellular anatomical structure bounding membrane of organelle vesicle membrane cytoplasmic vesicle membrane-bounded organelle protein-containing complex intracellular anatomical structure vesicle coat intracellular vesicle membrane protein complex endomembrane system COPI-coated vesicle membrane coat intracellular organelle cellular anatomical structure bounding membrane of organelle vesicle membrane cytoplasmic vesicle coated vesicle Golgi-associated vesicle vesicle COPI vesicle coat Golgi apparatus membrane coated membrane intracellular membrane-bounded organelle COPI-coated vesicle membrane coated vesicle membrane cytoplasmic vesicle membrane organelle Golgi-associated vesicle membrane cytoplasm organelle membrane extracellular region Golgi membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR006822	Coatomer, epsilon subunit	Family
A	IPR011990	Tetratricopeptide-like helical domain superfamily	Homologous Superfamily
B	IPR019775	WD40 repeat, conserved site	Conserved Site
B	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
B	IPR016391	Coatomer subunit alpha	Family
B	IPR050844	Coatomer complex subunit	Family
B	IPR020472	PAC1/LIS1-like, WD-40 repeat	Repeat
B	IPR010714	Coatomer, alpha subunit, C-terminal	Domain
B	IPR001680	WD40 repeat	Repeat
B	IPR006692	COPA/B, second beta-propeller domain	Domain
B	IPR047312	Coatomer subunit alpha, WD Associated Region	Domain
B	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
B	IPR056176	COPA/B, TPR domain	Domain

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.