3MV2 | pdb_00003mv2

Crystal Structure of a-COP in Complex with e-COP

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)
F	SCOP2B Superfamily	TPR-like	8095918	3001345	SCOP2B (2022-06-29)
D	SCOP2 Family	Coatomer epsilon subunit-like	8046374	4005048	SCOP2 (2022-06-29)
D	SCOP2 Superfamily	TPR-like	8095918	3001345	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	TPR-like	8095918	3001345	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	RING/U-box like	8095922	3000160	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	TPR-like	8095921	3001345	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	RING/U-box like	8095922	3000160	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	TPR-like	8095921	3001345	SCOP2B (2022-06-29)
A	SCOP2 Family	Coatomer alpha subunit C-terminal region-like	8085259	4006290	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	TPR-like	8095921	3001345	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	RING/U-box like	8095922	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)
F	PBP	e3mv2F1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Immunoglobulin-related	T: PEBP-like	F: PBP	ECOD (develop294)
D	PBP	e3mv2D1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Immunoglobulin-related	T: PEBP-like	F: PBP	ECOD (develop294)
B	ManC_GMP_beta-helix	e3mv2B1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Cu,Zn superoxide dismutase-like	F: ManC_GMP_beta-helix	ECOD (develop294)
E	PBP	e3mv2E1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Immunoglobulin-related	T: PEBP-like	F: PBP	ECOD (develop294)
C	PBP	e3mv2C1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Immunoglobulin-related	T: PEBP-like	F: PBP	ECOD (develop294)
A	COPI_C	e3mv2A1	A: alpha bundles	X: Membrane attack complex/perforin (MACPF) and cholesterol-dependent cytolysin (CDC) domains	H: Immunoglobulin-related	T: winged helix domain	F: COPI_C	ECOD (develop294)
A	LIM	e3mv2A2	A: alpha bundles	X: Hormone receptor domain (HRM, Pfam 02793)	H: Hormone receptor domain (HRM, Pfam 02793)	T: Hormone receptor domain (HRM, Pfam 02793)	F: LIM	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	1.25.40.10	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Tetratricopeptide repeat domain	CATH (4.3.0)
D	1.25.40.10	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Tetratricopeptide repeat domain	CATH (4.3.0)
B	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
B, D, F	PF04733	Coatomer epsilon subunit (Coatomer_E)	Coatomer epsilon subunit	-	Repeat
A, C, E	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
B, D, F	Coatomer subunit epsilon	structural molecule activity chromatin binding binding promoter-specific chromatin binding	localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport cellular localization intracellular transport endosomal transport late endosome to vacuole transport late endosome to vacuole transport via multivesicular body sorting pathway multivesicular body sorting pathway establishment of localization in cell localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport cellular localization intracellular transport endosomal transport late endosome to vacuole transport late endosome to vacuole transport via multivesicular body sorting pathway multivesicular body sorting pathway establishment of localization in cell vacuolar transport endosome transport via multivesicular body sorting pathway retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum endoplasmic reticulum to Golgi vesicle-mediated transport membrane organization vesicle budding from membrane cellular component organization vesicle organization organelle organization vesicle coating cellular component organization or biogenesis establishment of protein localization protein transport macromolecule localization intracellular protein localization	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
A, C, E	Coatomer subunit alpha	protein binding binding ubiquitin binding ubiquitin-like protein binding 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 intracellular mRNA localization RNA localization 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 Golgi membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D, F	IPR006822	Coatomer, epsilon subunit	Family
B, D, F	IPR011990	Tetratricopeptide-like helical domain superfamily	Homologous Superfamily
A, C, E	IPR019775	WD40 repeat, conserved site	Conserved Site
A, C, E	IPR011044	Quinoprotein amine dehydrogenase, beta chain-like	Homologous Superfamily
A, C, E	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
A, C, E	IPR016391	Coatomer subunit alpha	Family
A, C, E	IPR050844	Coatomer complex subunit	Family
A, C, E	IPR020472	PAC1/LIS1-like, WD-40 repeat	Repeat
A, C, E	IPR010714	Coatomer, alpha subunit, C-terminal	Domain
A, C, E	IPR001680	WD40 repeat	Repeat
A, C, E	IPR006692	COPA/B, second beta-propeller domain	Domain
A, C, E	IPR047312	Coatomer subunit alpha, WD Associated Region	Domain
A, C, E	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
A, C, E	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.