3EG9 | pdb_00003eg9

Crystal structure of the mammalian COPII-coat protein Sec23/24 bound to the transport signal sequence of membrin

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	FXa_inhibition	e3eg9B1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: FXa_inhibition	ECOD (v294.1)
B	Pyr_redox_2	e3eg9B4	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Pyr_redox_2	ECOD (v294.1)
A	EXOSC1	e3eg9A1	A: a/b three-layered sandwiches	X: Anticodon-binding domain of Class II aaRS	H: Anticodon-binding domain of Class II aaRS	T: Anticodon-binding domain of Class II aaRS	F: EXOSC1	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	1.20.120.730	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)	Sec23/Sec24 helical domain	CATH (4.3.0)
B	2.30.30.380	Mainly Beta	Roll	SH3 type barrels.	Zn-finger domain of Sec23/24	CATH (4.3.0)
B	2.60.40.1670	Mainly Beta	Sandwich	Immunoglobulin-like	beta-sandwich domain of Sec23/24	CATH (4.3.0)
B	3.40.50.410	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	von Willebrand factor, type A domain	CATH (4.3.0)
B	3.40.20.10	Alpha Beta	3-Layer(aba) Sandwich	Severin	Severin	CATH (4.3.0)
A	2.60.40.1670	Mainly Beta	Sandwich	Immunoglobulin-like	beta-sandwich domain of Sec23/24	CATH (4.3.0)
A	2.30.30.380	Mainly Beta	Roll	SH3 type barrels.	Zn-finger domain of Sec23/24	CATH (4.3.0)
A	3.40.50.410	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	von Willebrand factor, type A domain	CATH (4.3.0)
A	1.20.120.730	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)	Sec23/Sec24 helical domain	CATH (4.3.0)
A	3.40.20.10	Alpha Beta	3-Layer(aba) Sandwich	Severin	Severin	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	PF04815	Sec23/Sec24 helical domain (Sec23_helical)	Sec23/Sec24 helical domain	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and ...	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and the Sec13p/Sec31p complex. This domain is composed of five alpha helices.	Domain
B	PF00626	Gelsolin repeat (Gelsolin)	Gelsolin repeat		Domain
B	PF08033	Sec23/Sec24 beta-sandwich domain (Sec23_BS)	Sec23/Sec24 beta-sandwich domain		Domain
B	PF04811	Sec23/Sec24 trunk domain (Sec23_trunk)	Sec23/Sec24 trunk domain	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and ...	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and the Sec13p/Sec31p complex. This domain is known as the trunk domain and has an alpha/beta vWA fold and forms the dimer interface.	Domain
B	PF04810	Sec23/Sec24 zinc finger (zf-Sec23_Sec24)	Sec23/Sec24 zinc finger	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and ...	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and the Sec13p/Sec31p complex. This domain is found to be zinc binding domain.	Domain
A	PF04815	Sec23/Sec24 helical domain (Sec23_helical)	Sec23/Sec24 helical domain	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and ...	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and the Sec13p/Sec31p complex. This domain is composed of five alpha helices.	Domain
A	PF00626	Gelsolin repeat (Gelsolin)	Gelsolin repeat		Domain
A	PF08033	Sec23/Sec24 beta-sandwich domain (Sec23_BS)	Sec23/Sec24 beta-sandwich domain		Domain
A	PF04811	Sec23/Sec24 trunk domain (Sec23_trunk)	Sec23/Sec24 trunk domain	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and ...	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and the Sec13p/Sec31p complex. This domain is known as the trunk domain and has an alpha/beta vWA fold and forms the dimer interface.	Domain
A	PF04810	Sec23/Sec24 zinc finger (zf-Sec23_Sec24)	Sec23/Sec24 zinc finger	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and ...	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and the Sec13p/Sec31p complex. This domain is found to be zinc binding domain.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C	peptide	protein binding binding SNARE binding fusogenic activity SNAP receptor activity protein-macromolecule adaptor activity molecular adaptor activity	localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport establishment of protein localization protein transport macromolecule localization intracellular protein localization membrane organization membrane fusion organelle membrane fusion localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport establishment of protein localization protein transport macromolecule localization intracellular protein localization membrane organization membrane fusion organelle membrane fusion vesicle organization cellular component organization organelle fusion organelle organization cellular component organization or biogenesis vesicle fusion	cellular anatomical structure membrane membrane-bounded organelle intracellular organelle intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system Golgi membrane bounding membrane of organelle organelle membrane endoplasmic reticulum-Golgi intermediate compartment membrane cellular anatomical structure membrane membrane-bounded organelle intracellular organelle intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system Golgi membrane bounding membrane of organelle organelle membrane endoplasmic reticulum-Golgi intermediate compartment membrane endoplasmic reticulum-Golgi intermediate compartment cytosol SNARE complex protein-containing complex membrane protein complex endosome membrane endosome intracellular vesicle late endosome membrane cytoplasmic vesicle membrane cytoplasmic vesicle vesicle membrane late endosome vesicle transport vesicle transport vesicle membrane coated vesicle membrane COPII-coated ER to Golgi transport vesicle ER to Golgi transport vesicle membrane coated vesicle nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen organelle subcompartment endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum endoplasmic reticulum membrane
B	SEC24 related gene family, member D	protein binding binding SNARE binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	cellular localization establishment of protein localization transport intracellular transport establishment of localization localization protein transport establishment of localization in cell macromolecule localization cellular process intracellular protein localization intracellular protein transport membrane organization vesicle budding from membrane cellular localization establishment of protein localization transport intracellular transport establishment of localization localization protein transport establishment of localization in cell macromolecule localization cellular process intracellular protein localization intracellular protein transport membrane organization vesicle budding from membrane endoplasmic reticulum to Golgi vesicle-mediated transport vesicle cargo loading vesicle-mediated transport cellular component organization vesicle organization intercellular transport organelle organization COPII-coated vesicle cargo loading cellular component organization or biogenesis COPII-coated vesicle budding Golgi vesicle transport developmental process multicellular organism development multicellular organismal process embryo development ending in birth or egg hatching chordate embryonic development anatomical structure development embryo development in utero embryonic development	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle endoplasmic reticulum exit site endoplasmic reticulum cytoplasm intracellular membrane-bounded organelle endomembrane system cytosol transport vesicle membrane intracellular vesicle membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle endoplasmic reticulum exit site endoplasmic reticulum cytoplasm intracellular membrane-bounded organelle endomembrane system cytosol transport vesicle membrane intracellular vesicle transport vesicle membrane cytoplasmic vesicle membrane bounding membrane of organelle coated vesicle membrane COPII-coated ER to Golgi transport vesicle vesicle membrane cytoplasmic vesicle ER to Golgi transport vesicle membrane coated vesicle vesicle organelle membrane protein-containing complex vesicle coat membrane protein complex membrane coat coated membrane COPII vesicle coat organelle subcompartment endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum membrane
A	Protein transport protein Sec23A	GTPase regulator activity enzyme regulator activity enzyme activator activity GTPase activator activity molecular function activator activity nucleoside-triphosphatase regulator activity molecular function regulator activity cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding	localization protein localization to cell periphery cellular localization protein localization to plasma membrane macromolecule localization cellular process intracellular protein localization localization within membrane protein localization to membrane establishment of protein localization transport intracellular transport establishment of localization protein transport localization protein localization to cell periphery cellular localization protein localization to plasma membrane macromolecule localization cellular process intracellular protein localization localization within membrane protein localization to membrane establishment of protein localization transport intracellular transport establishment of localization protein transport establishment of localization in cell intracellular protein transport membrane organization vesicle budding from membrane endoplasmic reticulum to Golgi vesicle-mediated transport vesicle cargo loading vesicle-mediated transport cellular component organization vesicle organization intercellular transport organelle organization COPII-coated vesicle cargo loading cellular component organization or biogenesis COPII-coated vesicle budding Golgi vesicle transport	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle protein-containing complex vesicle coat intracellular vesicle transport vesicle membrane membrane protein complex endomembrane system intracellular organelle membrane coat bounding membrane of organelle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle protein-containing complex vesicle coat intracellular vesicle transport vesicle membrane membrane protein complex endomembrane system intracellular organelle membrane coat bounding membrane of organelle vesicle membrane cytoplasmic vesicle ER to Golgi transport vesicle membrane coated vesicle vesicle transport vesicle membrane intracellular membrane-bounded organelle coated membrane COPII vesicle coat cytoplasmic vesicle membrane coated vesicle membrane COPII-coated ER to Golgi transport vesicle organelle organelle membrane organelle subcompartment endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum endoplasmic reticulum membrane endoplasmic reticulum exit site Golgi membrane Golgi apparatus perinuclear region of cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C	IPR038407	Vesicle transport v-SNARE, N-terminal domain superfamily	Homologous Superfamily
C	IPR010989	SNARE	Homologous Superfamily
C	IPR027027	GOSR2/Membrin/Bos1	Family
B	IPR007123	Gelsolin-like domain	Domain
B	IPR029006	ADF-H/Gelsolin-like domain superfamily	Homologous Superfamily
B	IPR036465	von Willebrand factor A-like domain superfamily	Homologous Superfamily
B	IPR012990	Sec23/Sec24, beta-sandwich	Domain
B	IPR006896	Sec23/Sec24, trunk domain	Domain
B	IPR050550	SEC23/SEC24 family, SEC24 subfamily	Family
B	IPR036180	Gelsolin-like domain superfamily	Homologous Superfamily
B	IPR036175	Sec23/Sec24 helical domain superfamily	Homologous Superfamily
B	IPR006900	Sec23/Sec24, helical domain	Domain
B	IPR041742	Sec24-like, trunk domain	Domain
B	IPR006895	Zinc finger, Sec23/Sec24-type	Domain
A	IPR029006	ADF-H/Gelsolin-like domain superfamily	Homologous Superfamily
A	IPR012990	Sec23/Sec24, beta-sandwich	Domain
A	IPR006896	Sec23/Sec24, trunk domain	Domain
A	IPR036180	Gelsolin-like domain superfamily	Homologous Superfamily
A	IPR006900	Sec23/Sec24, helical domain	Domain
A	IPR006895	Zinc finger, Sec23/Sec24-type	Domain
A	IPR007123	Gelsolin-like domain	Domain
A	IPR036465	von Willebrand factor A-like domain superfamily	Homologous Superfamily
A	IPR037550	Sec23, C-terminal	Domain
A	IPR037364	Protein transport protein Sec23	Family
A	IPR036175	Sec23/Sec24 helical domain superfamily	Homologous Superfamily
A	IPR036174	Zinc finger, Sec23/Sec24-type superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C	Pharos: O14653	progressive myoclonic epilepsy type 6 dentatorubral-pallidoluysian atrophy atrial fibrillation progressive myoclonus epilepsy action myoclonus-renal failure syndrome Atypical Inclusion-Body Disease medulloblastoma ovarian cancer epilepsy intellectual disability neurodegenerative disease cleft lip osteosarcoma
B	Pharos: O94855	Cole-Carpenter syndrome Cole-Carpenter syndrome 2 osteogenesis imperfecta ulcerative colitis Crohn disease interstitial cystitis malignant ependymoma osteochondrodysplasia ovarian cancer psoriasis glioblastoma invasive ductal breast carcinoma malignant glioma pilocytic astrocytoma Sjogren syndrome Cole-Carpenter syndrome Cole-Carpenter syndrome 2 osteogenesis imperfecta ulcerative colitis Crohn disease interstitial cystitis malignant ependymoma osteochondrodysplasia ovarian cancer psoriasis glioblastoma invasive ductal breast carcinoma malignant glioma pilocytic astrocytoma Sjogren syndrome craniosynostosis hydrocephalus lung adenocarcinoma mucopolysaccharidosis type 4 osteosarcoma pituitary cancer
A	Pharos: Q15436	craniolenticulosutural dysplasia amyotrophic lateral sclerosis cataract hereditary spastic paraplegia malignant mesothelioma osteoarthritis osteosarcoma rheumatoid arthritis atypical teratoid rhabdoid tumor IgA glomerulonephritis malignant pancreatic neoplasm osteoarthritis susceptibility 1 ovarian cancer breast cancer gastric carcinoma craniolenticulosutural dysplasia amyotrophic lateral sclerosis cataract hereditary spastic paraplegia malignant mesothelioma osteoarthritis osteosarcoma rheumatoid arthritis atypical teratoid rhabdoid tumor IgA glomerulonephritis malignant pancreatic neoplasm osteoarthritis susceptibility 1 ovarian cancer breast cancer gastric carcinoma lung adenocarcinoma medulloblastoma Osteoarthrosis Deformans pancreatic ductal adenocarcinoma